Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007727.1 Hibiscus syriacus cultivar Beakdansim tig00109978_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 640948
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:255228 original size:13 final size:13
Alignment explanation
Indices: 255206--255240 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
255196 TTTGAAATCC
*
255206 AGCAAGATTAGAA
1 AGCAATATTAGAA
*
255219 AGCATTATTAGAA
1 AGCAATATTAGAA
255232 AGCAATATT
1 AGCAATATT
255241 GGTACCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (13 bp):
AGCAATATTAGAA
Found at i:257399 original size:21 final size:20
Alignment explanation
Indices: 257375--257419 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
257365 TTATAACTGT
257375 ATAAAAAATTAATTAAATAAA
1 ATAAAAAA-TAATTAAATAAA
*
257396 ATAATTAAATAATTAAATAAA
1 ATAA-AAAATAATTAAATAAA
257417 ATA
1 ATA
257420 CTAATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAAAATAATTAAATAAA
Found at i:257419 original size:13 final size:14
Alignment explanation
Indices: 257379--257407 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
257369 AACTGTATAA
257379 AAAATTAATTAAAT
1 AAAATTAATTAAAT
257393 AAAA-TAATTAAAT
1 AAAATTAATTAAAT
257406 AA
1 AA
257408 TTAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTAATTAAAT
Found at i:257442 original size:12 final size:12
Alignment explanation
Indices: 257386--257442 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 12
257376 TAAAAAATTA
257386 ATTAAATAAAAT
1 ATTAAATAAAAT
257398 AATTAAAT---A-
1 -ATTAAATAAAAT
257407 ATTAAATAAAAT
1 ATTAAATAAAAT
*
257419 ACT-AATAAAAT
1 ATTAAATAAAAT
*
257430 ATTAAATATAAT
1 ATTAAATAAAAT
257442 A
1 A
257443 AAATATACCT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
8 7 0.19
10 1 0.03
11 11 0.31
12 10 0.28
13 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTAAATAAAAT
Found at i:257443 original size:17 final size:17
Alignment explanation
Indices: 257375--257448 Score: 68
Period size: 16 Copynumber: 4.5 Consensus size: 17
257365 TTATAACTGT
* *
257375 ATAAAAAATTAATTA-A
1 ATAAAATATTAAATATA
257391 ATAAAATAATT-AA-ATA
1 ATAAAAT-ATTAAATATA
*
257407 ATTAAATA--AAATACTA
1 ATAAAATATTAAATA-TA
257423 ATAAAATATTAAATATA
1 ATAAAATATTAAATATA
257440 ATAAAATAT
1 ATAAAATAT
257449 ACCTTAAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
14 2 0.04
15 3 0.06
16 23 0.49
17 14 0.30
18 5 0.11
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAATATTAAATATA
Found at i:258068 original size:15 final size:15
Alignment explanation
Indices: 258044--258086 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
258034 ACACCATTAA
*
258044 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
258059 ATTAAATTATAAAGT
1 ATTAAATTATAAAAT
*
258074 ACTAAATGTATAA
1 ATTAAAT-TATAA
258087 TTATAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:258107 original size:22 final size:22
Alignment explanation
Indices: 258082--258131 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
258072 GTACTAAATG
*
258082 TATAATTATAAATTAGTTAAAA
1 TATAATTATAAATTAATTAAAA
* * *
258104 TATAAATGTAATTTAATTAAAA
1 TATAATTATAAATTAATTAAAA
258126 TATAAT
1 TATAAT
258132 ATTTATAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TATAATTATAAATTAATTAAAA
Found at i:260095 original size:21 final size:20
Alignment explanation
Indices: 260070--260108 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
260060 GTAATTTTTA
260070 AATATATATT-TTATAAAATTT
1 AATATA-ATTATT-TAAAATTT
260091 AATATAATTATTTAAAAT
1 AATATAATTATTTAAAAT
260109 AATCATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATAATTATTTAAAATTT
Found at i:260628 original size:18 final size:18
Alignment explanation
Indices: 260607--260641 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
260597 CAATTCTTTA
*
260607 GTATTATTTATTTATTAC
1 GTATTAGTTATTTATTAC
260625 GTATTAGTTATTTATTA
1 GTATTAGTTATTTATTA
260642 TAATTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (18 bp):
GTATTAGTTATTTATTAC
Found at i:262258 original size:24 final size:25
Alignment explanation
Indices: 262198--262258 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
262188 TCGAGCCAGG
262198 TATATA-TATA-TATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
*
262221 TATATATT-TTTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
262245 T-T-TATTAATATTAT
1 TATATATT-ATATTAT
262259 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 20 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:262307 original size:13 final size:13
Alignment explanation
Indices: 262288--262336 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
262278 TTTAATATTT
*
262288 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
*
262300 ATCGGGGTGGGTA
1 ATCGGGGCGGGTA
*
262313 ATCGGGGAGGGTA
1 ATCGGGGCGGGTA
262326 ATCGGGGCGGG
1 ATCGGGGCGGG
262337 GATTACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.14, C:0.12, G:0.55, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:263357 original size:11 final size:12
Alignment explanation
Indices: 263317--263366 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 12
263307 TGTTGACTGT
263317 CGTTGACC--AC
1 CGTTGACCGGAC
263327 CGTTGACCGGAC
1 CGTTGACCGGAC
* *
263339 CTTTGACCGG-G
1 CGTTGACCGGAC
263350 CGTTGACC-GAC
1 CGTTGACCGGAC
263361 CGTTGA
1 CGTTGA
263367 TTTTTTCGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 9 0.27
11 13 0.39
12 11 0.33
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (12 bp):
CGTTGACCGGAC
Found at i:287067 original size:23 final size:23
Alignment explanation
Indices: 287034--287092 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
287024 ATTTTAAAAT
*
287034 ATTAAACATATAATTATAAATTA
1 ATTAAAAATATAATTATAAATTA
* * *
287057 GTTAAAAATATAAATATAATTTA
1 ATTAAAAATATAATTATAAATTA
287080 ATT-AAAATATAAT
1 ATTAAAAATATAAT
287093 ATTTATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAAAAATATAATTATAAATTA
Found at i:289662 original size:2 final size:2
Alignment explanation
Indices: 289650--289746 Score: 162
Period size: 2 Copynumber: 49.0 Consensus size: 2
289640 TATTAATCAG
289650 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
289692 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
289733 AT AT CT AT AT AT AT
1 AT AT AT AT AT AT AT
289747 CATAATATCT
Statistics
Matches: 90, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
1 2 0.02
2 86 0.96
3 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:289693 original size:31 final size:31
Alignment explanation
Indices: 289650--289743 Score: 170
Period size: 31 Copynumber: 3.0 Consensus size: 31
289640 TATTAATCAG
289650 ATATGATATATATATATATATATATATATATA
1 ATAT-ATATATATATATATATATATATATATA
289682 ATATATATATATATATATATATATATATATA
1 ATATATATATATATATATATATATATATATA
*
289713 ATATATATATATATATATATATATCTATATA
1 ATATATATATATATATATATATATATATATA
289744 TATCATAATA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
31 57 0.93
32 4 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
ATATATATATATATATATATATATATATATA
Found at i:292223 original size:43 final size:43
Alignment explanation
Indices: 292164--292513 Score: 178
Period size: 43 Copynumber: 8.2 Consensus size: 43
292154 TGAGAACAAA
* *
292164 AAACGCCGCAATAGGTCAATATCTATTA-CGACATTTTTTGAAC
1 AAACGCCGCAAAAGGTCAATATCTA-TAGCGACATTTTTGGAAC
* * * *
292207 AAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAAT
1 AAACGCCGCAAAAGGTCAATATCTATAGCGACATTTTTGGAAC
* * * * * *** *
292250 AAACGCCGCAAAAAGT-TATGATATATAGCGGCGTTTCAAGAAA
1 AAACGCCGCAAAAGGTCAAT-ATCTATAGCGACATTTTTGGAAC
* *
292293 AAACGCCGCAAAAGGTC-AGATCTATAG-TAGCATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCGA-CATTTTTGGA-AC
* * * * * *
292336 AAAGGCCGCAAAAGAT-AAGACCTATA-CTGGCATTTTTAGAAC
1 AAACGCCGCAAAAGGTCAATATCTATAGC-GACATTTTTGGAAC
* * * * * * *
292378 AAATGCCGTAAAAGGTC-AGACCTATAGTGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCGACATTTTTGGA-AC
* * * * * * *
292421 AAACGCCGCAAAATGTC-AGACCTATAACGGCGTTTTTGAACAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCGACATTTTTGGA-AC
* * * * * *
292464 AAACGCCGTAAAAAGTC-AGACCTATAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCGACATTTTTGGA-AC
292507 AAACGCC
1 AAACGCC
292514 ACTAATTACC
Statistics
Matches: 250, Mismatches: 46, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
42 51 0.20
43 199 0.80
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAATATCTATAGCGACATTTTTGGAAC
Found at i:292391 original size:85 final size:83
Alignment explanation
Indices: 292190--292513 Score: 319
Period size: 85 Copynumber: 3.8 Consensus size: 83
292180 CAATATCTAT
* * * * *
292190 TACGACATTTTTTGAACAAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGA-ATAAAC
1 TACGGCATTTTTAGAACAAACGCCGCAAAAGGTC-AGACCTATAGCGGCGTTTTTGGATACAAAC
* **
292254 GCCGCAAAAAGTTATGATATA
65 GCCGC-AAAAG-TAAGACCTA
* ** * * ** * *
292275 TAGCGGCGTTTCAAGAAAAAACGCCGCAAAAGGTCAGATCTATAGTAGCATTTTTGGATACAAAG
1 TA-CGGCATTTTTAGAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAAC
292340 GCCGCAAAAGATAAGACCTA
65 GCCGCAAAAG-TAAGACCTA
* * * *
292360 TACTGGCATTTTTAGAACAAATGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAAC
1 TAC-GGCATTTTTAGAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAAC
*
292425 GCCGCAAAATGTCAGACCTA
65 GCCGCAAAA-GTAAGACCTA
* * *
292445 TAACGGCGTTTTT-GAACACAAACGCCGTAAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAA
1 T-ACGGCATTTTTAG-A-ACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAA
292509 ACGCC
63 ACGCC
292514 ACTAATTACC
Statistics
Matches: 199, Mismatches: 33, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
84 2 0.01
85 111 0.56
86 86 0.43
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (83 bp):
TACGGCATTTTTAGAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAACG
CCGCAAAAGTAAGACCTA
Found at i:295831 original size:41 final size:41
Alignment explanation
Indices: 295762--296212 Score: 447
Period size: 41 Copynumber: 10.9 Consensus size: 41
295752 TTGTAAACAC
* * * * *
295762 AAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
*
295803 AAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * * *
295844 AAATGTCAATAAAGTACGAGTCTTTAGCAGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * * *
295885 AAATGCCACTAAATTACGAGTCTTTAGCGACGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATA-A
* * * * * * *
295927 CAAACGCCACTATAGTACAAGTGTATAACGACGTTTGAATAA
1 -AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * ***
295969 AAATGCCACTAAAGTACGCGTCTTTAGCGAAATTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * *
296010 AAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATA-A
* * * *
296052 CAAACGCCACTATAA-TAC-ATGTGTATAACGACGTTTGTATAA
1 -AAACGCCACTA-AAGTACGA-GTCTTTAGCGGCGTTTGTATAA
* * *
296094 AAACGCCACTAAAGTACAATTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
** * *
296135 AAATACCACTAAAATACAAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * *
296176 AAACGCCACTAAAGTACTACTCTTTTGCGGCGTTTGT
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGT
296213 TGAAAAAACG
Statistics
Matches: 339, Mismatches: 63, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
40 2 0.01
41 269 0.79
42 6 0.02
43 60 0.18
44 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
Found at i:295973 original size:125 final size:124
Alignment explanation
Indices: 295786--296192 Score: 500
Period size: 125 Copynumber: 3.3 Consensus size: 124
295776 TACAAGTGTA
* * * * * * *
295786 TAGCGGCGTTTG-AATA-A-AAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAAT
1 TAGCGGCGTTTGTAA-ACACAAACGCCACTATAGTACAAGTGTATAACGACGTTTGTATAAAAAT
* *
295848 GTCAATAAAGTACGAGTCTTTAGCAGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
65 GCCACTAAAGTACGAGTCTTTAGC-GCGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
* *
295909 TAGCGACGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGACGTTTGAATAAAAATG
1 TAGCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGACGTTTGTATAAAAATG
* ** * *
295974 CCACTAAAGTACGCGTCTTTAGCGAAATTTGTATAAAAACGCCACTAAATTATGAGTCTT
66 CCACTAAAGTACGAGTCTTTAGCG-CGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
* * *
296034 TAGCGGCGTTTGTAAACACAAACGCCACTATAATACATGTGTATAACGACGTTTGTATAAAAACG
1 TAGCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGACGTTTGTATAAAAATG
* * * * * *
296099 CCACTAAAGTACAATTCTATAGCGGCGTTTGTATAAAAATACCACTAAAATACAAGTCTT
66 CCACTAAAGTACGAGTCTTTAGC-GCGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
* *
296159 TAGCGGCGTTTGTATA-A-AAACGCCACTAAAGTAC
1 TAGCGGCGTTTGTAAACACAAACGCCACTATAGTAC
296193 TACTCTTTTG
Statistics
Matches: 244, Mismatches: 35, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
123 27 0.11
124 5 0.02
125 211 0.86
126 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (124 bp):
TAGCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGACGTTTGTATAAAAATG
CCACTAAAGTACGAGTCTTTAGCGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
Found at i:296033 original size:166 final size:168
Alignment explanation
Indices: 295745--296212 Score: 606
Period size: 166 Copynumber: 2.8 Consensus size: 168
295735 TTGTAAACTT
*
295745 ACGACATTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCC
1 ACGACGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCC
* * *
295810 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGTCAATAAAGTACGAGTCTTTAGCAGC
66 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCAGC
* * *
295875 GTTTGTATA-A-AAATGCCACTA-AATTACGA-GTCTTTA
131 GTTTGTAAACACAAACGCCACTATAA-TAC-ATGTCTATA
* * *
295911 GCGACGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGACGTTTGAATAAAAATGCC
1 ACGACGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCC
* *** * * *
295976 ACTAAAGTACGCGTCTTTAGCGAAATTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGC
66 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCAGC
*
296041 GTTTGTAAACACAAACGCCACTATAATACATGTGTATA
131 GTTTGTAAACACAAACGCCACTATAATACATGTCTATA
* * * * * *
296079 ACGACGTTTGTATA-A-AAACGCCACTAAAGTACAATTCTATAGCGGCGTTTGTATAAAAATACC
1 ACGACGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCC
* * * * * *
296142 ACTAAAATACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTTTTGCGGC
66 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCAGC
296207 GTTTGT
131 GTTTGT
296213 TGAAAAAACG
Statistics
Matches: 260, Mismatches: 38, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
166 225 0.87
167 3 0.01
168 30 0.12
169 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (168 bp):
ACGACGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCC
ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCAGC
GTTTGTAAACACAAACGCCACTATAATACATGTCTATA
Found at i:296761 original size:17 final size:17
Alignment explanation
Indices: 296739--296772 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
296729 CTTTAGCTTC
296739 CCCAGCTTTAAGTATTT
1 CCCAGCTTTAAGTATTT
296756 CCCAGCTTTAAGTATTT
1 CCCAGCTTTAAGTATTT
296773 TTTATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (17 bp):
CCCAGCTTTAAGTATTT
Found at i:300445 original size:17 final size:18
Alignment explanation
Indices: 300423--300459 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
300413 TCTTATGCAC
300423 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
300440 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
300458 AT
1 AT
300460 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:302827 original size:105 final size:106
Alignment explanation
Indices: 302518--302839 Score: 391
Period size: 108 Copynumber: 3.0 Consensus size: 106
302508 GGGTGTGACA
* * * * **
302518 TATTTTGTTATAAATATTATTAACATATCGGTTGCGCCTAAAATGTAAGTAAAATTTAAATTGAT
1 TATTTTGTTATAAATATTATTAACATA-CAGTTGCGCCTAAAATGTTACTAAAGTTTAAGCTGAT
* * * *
302583 AGGGGTCATAGAAAT-TCTACGATAACAAAATAAGTCAATTACT
65 -GGAGCCTTAGAAATCTC-ACGATAACAAAATAAGTTAATTACT
* *
302626 TATTTTGTTATAAATATTATTAACATTACCTGTTGCGCCTAAAATGTTACCAAAGTTTAAGCTGA
1 TATTTTGTTATAAATATTATTAACA-TA-CAGTTGCGCCTAAAATGTTACTAAAGTTTAAGCTGA
* *
302691 T-GAGACCTTAGAAATCTCACGATAACGAAATAAGTTAATTATT
64 TGGAG-CCTTAGAAATCTCACGATAACAAAATAAGTTAATTACT
*
302734 TATTTTGTTATAAATATTATTAACATA-AGTTGCGACTAAAATGTTACTAAAGTTTAAGCTGATG
1 TATTTTGTTATAAATATTATTAACATACAGTTGCGCCTAAAATGTTACTAAAGTTTAAGCTGATG
* **
302798 GAGCCTTAAACAATCTCATTATAAC-AAATAAGTTAATTACT
66 GAGCCTTAGA-AATCTCACGATAACAAAATAAGTTAATTACT
302839 T
1 T
302840 GTAATGTTAT
Statistics
Matches: 188, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
105 55 0.29
106 15 0.08
107 4 0.02
108 80 0.43
109 34 0.18
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (106 bp):
TATTTTGTTATAAATATTATTAACATACAGTTGCGCCTAAAATGTTACTAAAGTTTAAGCTGATG
GAGCCTTAGAAATCTCACGATAACAAAATAAGTTAATTACT
Found at i:302865 original size:105 final size:105
Alignment explanation
Indices: 302601--302849 Score: 277
Period size: 105 Copynumber: 2.3 Consensus size: 105
302591 TAGAAATTCT
* * ** * * * *
302601 ACGATAACAAAATAAGTCAATTACTTATTTTGTTATAAATATTATTAACATTACCTGTTGCGCCT
1 ACGATAACGAAATAAGTTAATTACTTATAATGTTATAAAGATTATCAACA-TA--AGTTGCGACT
*
302666 AAAATGTTACCAAAGTTTAAGCTGATGAGACCTTAGAAATCTC
63 AAAATGTTACCAAAGTTTAAGCTGATGAGACCTTAAAAATCTC
* ** * *
302709 ACGATAACGAAATAAGTTAATTATTTATTTTGTTATAAATATTATTAACATAAGTTGCGACTAAA
1 ACGATAACGAAATAAGTTAATTACTTATAATGTTATAAAGATTATCAACATAAGTTGCGACTAAA
*
302774 ATGTTACTAAAGTTTAAGCTGATG-GAGCCTTAAACAATCTC
66 ATGTTACCAAAGTTTAAGCTGATGAGA-CCTTAAA-AATCTC
** *
302815 ATTATAAC-AAATAAGTTAATTACTTGTAATGTTAT
1 ACGATAACGAAATAAGTTAATTACTTATAATGTTAT
302850 GTAGATTCTC
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
104 2 0.02
105 63 0.50
106 12 0.10
107 2 0.02
108 47 0.37
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (105 bp):
ACGATAACGAAATAAGTTAATTACTTATAATGTTATAAAGATTATCAACATAAGTTGCGACTAAA
ATGTTACCAAAGTTTAAGCTGATGAGACCTTAAAAATCTC
Found at i:303547 original size:54 final size:54
Alignment explanation
Indices: 303405--304041 Score: 680
Period size: 54 Copynumber: 11.8 Consensus size: 54
303395 TGTTATCGTA
* * *
303405 AACGTTACTCCTACTTATAAGGTAACCGG-TAGAAAATAACAAGGTGCAATCGTT
1 AACGTTACTCCTACTTATAAGGTAATCGGTTA-AAAATAACAAGGCGCAACCGTT
** * * **
303459 AAACGTTACTATTTCTTATAAGGTAA-CTGATTAAAAATAACAAGGCATAACCGTT
1 -AACGTTACTCCTACTTATAAGGTAATC-GGTTAAAAATAACAAGGCGCAACCGTT
* * *
303514 GACGTTACTCCTACATATAAGGTAATAGGTTAAAAATAACAAGGCGCAACCGTT
1 AACGTTACTCCTACTTATAAGGTAATCGGTTAAAAATAACAAGGCGCAACCGTT
* * * * *
303568 AACGTTACTCCTACTTATAAGGTTA-CTTGTTAAAAAAAAACAAGGTGCAACCGTA
1 AACGTTACTCCTACTTATAAGGTAATC-GGTT-AAAAATAACAAGGCGCAACCGTT
* * * * * *
303623 AACGTTACTCCTACTTATAAGGTAATCGATTGAAAATAACAAGGCACGACTGTA
1 AACGTTACTCCTACTTATAAGGTAATCGGTTAAAAATAACAAGGCGCAACCGTT
* *
303677 AACGTTACTCCTACTTATAAGGTAATCGTTTAAAAATAACAAGGCACAACCGTT
1 AACGTTACTCCTACTTATAAGGTAATCGGTTAAAAATAACAAGGCGCAACCGTT
* * * * *
303731 AACGTTACTACTCCTTATAAGGTAACCGATTAAAAATAACAAGCCGCAACCGTT
1 AACGTTACTCCTACTTATAAGGTAATCGGTTAAAAATAACAAGGCGCAACCGTT
*
303785 AACGTTACTCCTACTTATAAGGTAAAT-GGTTAAAAATAACAAGGTGCAACCGTT
1 AACGTTACTCCTACTTATAAGGT-AATCGGTTAAAAATAACAAGGCGCAACCGTT
* * * * *
303839 AAGGTTACTCCTACTTATAAGGTTACCGGTTAAAAA-AACAAGGCACAACCGTA
1 AACGTTACTCCTACTTATAAGGTAATCGGTTAAAAATAACAAGGCGCAACCGTT
* * * * *
303892 AACGTTACTACTACTTATAAAGTAATCAGTTGAAAATAACAATGCGCAACCGTT
1 AACGTTACTCCTACTTATAAGGTAATCGGTTAAAAATAACAAGGCGCAACCGTT
* * ** * *
303946 AATGTTACTCCTACTTATAAGATAA-CTGGCAAAAAACAAAACAAGACGCAACCG-T
1 AACGTTACTCCTACTTATAAGGTAATC-GG-TTAAAA-ATAACAAGGCGCAACCGTT
* * *
304001 AA--ATACTCCTACTTATAAGGTAACCGATTAAAAATAACAAG
1 AACGTTACTCCTACTTATAAGGTAATCGGTTAAAAATAACAAG
304042 ACACAACCAA
Statistics
Matches: 485, Mismatches: 84, Indels: 30
0.81 0.14 0.05
Matches are distributed among these distances:
51 7 0.01
52 4 0.01
53 65 0.13
54 297 0.61
55 95 0.20
56 17 0.04
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (54 bp):
AACGTTACTCCTACTTATAAGGTAATCGGTTAAAAATAACAAGGCGCAACCGTT
Found at i:303661 original size:163 final size:161
Alignment explanation
Indices: 303405--304049 Score: 710
Period size: 163 Copynumber: 4.0 Consensus size: 161
303395 TGTTATCGTA
* * * * *
303405 AACGTTACTCCTACTTATAAGGTAACCGGTAGAAAATAACAAGGTGCAATCGTTAAACGTTACTA
1 AACGTTACTACTACTTATAAGGTAACCGTTA-AAAATAACAAGGCGCAACCG-TAAACGTTACTC
* * * * *
303470 TTTCTTATAAGGTAA-CTGATTAAAAATAACAAGGCATAACCGTTGACGTTACTCCTACATATAA
64 CTACTTATAAGGTAATC-GATTAAAAATAACAAGGCACAACCGTTAACGTTACTCCTACTTATAA
* *
303534 GGTAATAGGTTAAAAATAACAAGGCGCAACCGTT
128 GGTAATCGGTTAAAAATAACAAGGCACAACCGTT
* * * * *
303568 AACGTTACTCCTACTTATAAGGTTACTTGTTAAAAAAAAACAAGGTGCAACCGTAAACGTTACTC
1 AACGTTACTACTACTTATAAGGTAAC-CGTT-AAAAATAACAAGGCGCAACCGTAAACGTTACTC
* * * *
303633 CTACTTATAAGGTAATCGATTGAAAATAACAAGGCACGACTGTAAACGTTACTCCTACTTATAAG
64 CTACTTATAAGGTAATCGATTAAAAATAACAAGGCACAACCGTTAACGTTACTCCTACTTATAAG
*
303698 GTAATCGTTTAAAAATAACAAGGCACAACCGTT
129 GTAATCGGTTAAAAATAACAAGGCACAACCGTT
* * *
303731 AACGTTACTACTCCTTATAAGGTAACCGATTAAAAATAACAAGCCGCAACCGTTAACGTTACTCC
1 AACGTTACTACTACTTATAAGGTAACCG-TTAAAAATAACAAGGCGCAACCGTAAACGTTACTCC
* ** *
303796 TACTTATAAGGTAAAT-GGTTAAAAATAACAAGGTGCAACCGTTAAGGTTACTCCTACTTATAAG
65 TACTTATAAGGT-AATCGATTAAAAATAACAAGGCACAACCGTTAACGTTACTCCTACTTATAAG
* * *
303860 GTTACCGGTTAAAAA-AACAAGGCACAACCGTA
129 GTAATCGGTTAAAAATAACAAGGCACAACCGTT
* * * * * *
303892 AACGTTACTACTACTTATAAAGTAATCAGTTGAAAATAACAATGCGCAACCGTTAATGTTACTCC
1 AACGTTACTACTACTTATAAGGTAA-CCGTTAAAAATAACAAGGCGCAACCGTAAACGTTACTCC
* * * * * * *
303957 TACTTATAAGATAACTGGCA-AAAAACAAAACAAGACGCAACCG-TAA--ATACTCCTACTTATA
65 TACTTATAAGGTAA-TCG-ATTAAAA-ATAACAAGGCACAACCGTTAACGTTACTCCTACTTATA
* * *
304018 AGGTAACCGATTAAAAATAACAAGACACAACC
127 AGGTAATCGGTTAAAAATAACAAGGCACAACC
304050 AATAACATTA
Statistics
Matches: 416, Mismatches: 55, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
160 31 0.07
161 96 0.23
162 105 0.25
163 162 0.39
164 21 0.05
165 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (161 bp):
AACGTTACTACTACTTATAAGGTAACCGTTAAAAATAACAAGGCGCAACCGTAAACGTTACTCCT
ACTTATAAGGTAATCGATTAAAAATAACAAGGCACAACCGTTAACGTTACTCCTACTTATAAGGT
AATCGGTTAAAAATAACAAGGCACAACCGTT
Found at i:304091 original size:161 final size:160
Alignment explanation
Indices: 303614--304069 Score: 375
Period size: 161 Copynumber: 2.8 Consensus size: 160
303604 AAAACAAGGT
* * * ** * * * * * *
303614 GCAACCGTAAACGTTACTCCTACTTATAAGGT-AATCGATTGAAAATAACAAGGCACGACTGTAA
1 GCAACCGTTAACGTTACTCCTACTTATAAGATAAATGGA-AAAAAAAAACAAGACGCAACCGTTA
* * * * * * * **
303678 ACGTTACTCCTACTTATAAGGTAATCGTTTAAAAATAACAAGGCACAACCGTTAACGTTACTACT
65 A-GATACTCCTACTTATAAGGTAACCGATTAAAAA-AACAAGACACAACCATAAACATTACTAAG
** * * *
303743 CCTTATAAGGTAA-CCGATTAAAAATAACAAGCC
128 AATTATAAAGTAATCAGA-TGAAAATAACAAGCC
* ** * **
303776 GCAACCGTTAACGTTACTCCTACTTATAAGGTAAATGGTTAAAAATAACAAGGTGCAACCGTTAA
1 GCAACCGTTAACGTTACTCCTACTTATAAGATAAATGGAAAAAAAAAACAAGACGCAACCGTTAA
* * * * * * ** *
303841 GGTTACTCCTACTTATAAGGTTACCGGTTAAAAAAACAAGGCACAACCGTAAACGTTACTACTAC
66 -GATACTCCTACTTATAAGGTAACCGATTAAAAAAACAAGACACAACCATAAACATTACTAAGAA
*
303906 TTATAAAGTAATCAGTTGAAAATAACAATG-C
130 TTATAAAGTAATCAGATGAAAATAACAA-GCC
* *
303937 GCAACCGTTAATGTTACTCCTACTTATAAGATAACTGGCAAAAAACAAAACAAGACGCAACCG-T
1 GCAACCGTTAACGTTACTCCTACTTATAAGATAAATGG-AAAAAA-AAAACAAGACGCAACCGTT
*
304001 AA-ATACTCCTACTTATAAGGTAACCGATTAAAAATAACAAGACACAACCA-ATAACATTATTCA
64 AAGATACTCCTACTTATAAGGTAACCGATTAAAAA-AACAAGACACAACCATA-AACATTACT-A
304064 AGAATT
126 AGAATT
304070 TTAACTTAAC
Statistics
Matches: 249, Mismatches: 37, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
160 30 0.12
161 106 0.43
162 95 0.38
163 18 0.07
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (160 bp):
GCAACCGTTAACGTTACTCCTACTTATAAGATAAATGGAAAAAAAAAACAAGACGCAACCGTTAA
GATACTCCTACTTATAAGGTAACCGATTAAAAAAACAAGACACAACCATAAACATTACTAAGAAT
TATAAAGTAATCAGATGAAAATAACAAGCC
Found at i:304362 original size:71 final size:73
Alignment explanation
Indices: 304263--304449 Score: 236
Period size: 73 Copynumber: 2.6 Consensus size: 73
304253 ACTTGTTATA
* *
304263 AAATTCGAAAGTATCGATACTTGAGAAAAAG-ATTGATACTTTACAGCCTTCTCATTTTTTATGT
1 AAATTCGAAAGTATCGATACTTGTGAAAAAGTATTGATACTTTACAGCCTTCTCATTTTTCATGT
304327 ATTTTTTT
66 ATTTTTTT
** * * * *
304335 -AATTCGAAAGTA-CTGATGTTTGTGAAAAAAGTATTAAAACTTTGCAGTCTTCTCATTTTTCAT
1 AAATTCGAAAGTATC-GATACTTGTG-AAAAAGTATTGATACTTTACAGCCTTCTCATTTTTCAT
*
304398 GTTTTTTTTT
64 GTATTTTTTT
* *
304408 AAATTCGAAAATATCGATACTTGTGAAAAGGTATTGATACTT
1 AAATTCGAAAGTATCGATACTTGTGAAAAAGTATTGATACTT
304450 GGAATAAATC
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
70 1 0.01
71 19 0.20
72 6 0.06
73 49 0.52
74 19 0.20
75 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (73 bp):
AAATTCGAAAGTATCGATACTTGTGAAAAAGTATTGATACTTTACAGCCTTCTCATTTTTCATGT
ATTTTTTT
Found at i:304481 original size:21 final size:21
Alignment explanation
Indices: 304457--304551 Score: 104
Period size: 21 Copynumber: 4.6 Consensus size: 21
304447 CTTGGAATAA
*
304457 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
304478 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
304497 ATCGCACCGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
304518 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
304539 ATCGCAATGCGAA
1 ATCGCAACGCGAA
304552 TATGTAAATC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 14 0.23
21 46 0.77
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:304784 original size:30 final size:30
Alignment explanation
Indices: 304743--304803 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
304733 CTCTAAATAT
304743 AATTATTTATAATCTGTTA-TTTGAATGGA
1 AATTATTTATAATCTGTTACTTTGAATGGA
304772 AATTATTTTATAATCTGTTATCTTTGAATGGA
1 AATTA-TTTATAATCTGTTA-CTTTGAATGGA
304804 GTTAGAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 5 0.17
30 14 0.48
32 10 0.34
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (30 bp):
AATTATTTATAATCTGTTACTTTGAATGGA
Found at i:309081 original size:20 final size:20
Alignment explanation
Indices: 309053--309091 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
309043 AATCAGATTG
* *
309053 CCCAGGGGGTACAGATTCCC
1 CCCAAGGGGAACAGATTCCC
309073 CCCAAGGGGAACAGATTCC
1 CCCAAGGGGAACAGATTCC
309092 ACCTGTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.13
Consensus pattern (20 bp):
CCCAAGGGGAACAGATTCCC
Found at i:312022 original size:34 final size:34
Alignment explanation
Indices: 311975--312059 Score: 118
Period size: 33 Copynumber: 2.5 Consensus size: 34
311965 AAAAATTATC
311975 AAACTAACAAAACTAATTTTTTTAAAATATAACTT
1 AAACTAAC-AAACTAATTTTTTTAAAATATAACTT
* * * *
312010 CAACTAATAAACT-ACTTTTTTATAATATAACTT
1 AAACTAACAAACTAATTTTTTTAAAATATAACTT
312043 AAACTAACAAACTAATT
1 AAACTAACAAACTAATT
312060 AATTAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 29 0.69
34 7 0.17
35 6 0.14
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.36
Consensus pattern (34 bp):
AAACTAACAAACTAATTTTTTTAAAATATAACTT
Found at i:312057 original size:41 final size:45
Alignment explanation
Indices: 312011--312106 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 45
312001 ATATAACTTC
312011 AACTAATAAACT-A-CTTT-TT-TATAATATAACTTAAACTAACA
1 AACTAATAAACTAATCTTTGTTATATAATATAACTTAAACTAACA
* * *
312052 AACTAATTAATTAAATTTTTGTTATATAATATAACTTAAACTAACA
1 AACTAATAAACT-AATCTTTGTTATATAATATAACTTAAACTAACA
312098 AACTAATAA
1 AACTAATAA
312107 TTTAAACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 10 0.22
43 1 0.02
44 3 0.07
45 2 0.04
46 30 0.65
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (45 bp):
AACTAATAAACTAATCTTTGTTATATAATATAACTTAAACTAACA
Found at i:312111 original size:21 final size:21
Alignment explanation
Indices: 312082--312125 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
312072 GTTATATAAT
312082 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
312103 ATAATTTAAACTAATAAACTA
1 ATAACTTAAACTAACAAACTA
312124 AT
1 AT
312126 TTAAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:313837 original size:21 final size:21
Alignment explanation
Indices: 313811--313850 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
313801 ATTCAAACAT
**
313811 TTATACAAATGTAAATGAACG
1 TTATACAAACATAAATGAACG
313832 TTATACAAACATAAATGAA
1 TTATACAAACATAAATGAA
313851 TGGTTCACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (21 bp):
TTATACAAACATAAATGAACG
Found at i:315232 original size:36 final size:36
Alignment explanation
Indices: 315192--315263 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
315182 ATTTCTGCAT
315192 AGTTCGTTGCTTTATTCTCATTAAGTATTTAGGTTA
1 AGTTCGTTGCTTTATTCTCATTAAGTATTTAGGTTA
315228 AGTTCGTTGCTTTATTCTCATTAAGTATTTAGGTTA
1 AGTTCGTTGCTTTATTCTCATTAAGTATTTAGGTTA
315264 CCAGACTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (36 bp):
AGTTCGTTGCTTTATTCTCATTAAGTATTTAGGTTA
Found at i:326317 original size:2 final size:2
Alignment explanation
Indices: 326310--326335 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
326300 AAGTTTAGCC
326310 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
326336 GGGTGTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:332003 original size:31 final size:31
Alignment explanation
Indices: 331960--332027 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
331950 TTTGAATGAA
*
331960 TATAGTTAAATAAAAAATAAAAATTTA-AGTG
1 TATAATTAAATAAAAAATAAAAATTTATA-TG
* * *
331991 TATAATTAAATAAGAATTAAAATTTTATATG
1 TATAATTAAATAAAAAATAAAAATTTATATG
332022 TATAAT
1 TATAAT
332028 GGCATACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.38
Consensus pattern (31 bp):
TATAATTAAATAAAAAATAAAAATTTATATG
Found at i:332919 original size:9 final size:9
Alignment explanation
Indices: 332907--332958 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
332897 TAATATTTTG
332907 TATTTAATT
1 TATTTAATT
*
332916 TATTTAA-G
1 TATTTAATT
332924 TATTTAATT
1 TATTTAATT
332933 TATTTAA--
1 TATTTAATT
* *
332940 TATTTTACT
1 TATTTAATT
332949 TATTTAATT
1 TATTTAATT
332958 T
1 T
332959 TTTTTGCAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:332928 original size:17 final size:17
Alignment explanation
Indices: 332906--332955 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
332896 TTAATATTTT
332906 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
332923 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
332940 -TATTTTACTTATTTAA
1 GTATTTAATTTATTTAA
332956 TTTTTTTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:332951 original size:16 final size:16
Alignment explanation
Indices: 332915--332960 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
332905 TGTATTTAAT
* *
332915 TTATTTAAGTATTTAAT
1 TTATTTAA-TATTTTAC
332932 TTATTTAATATTTTAC
1 TTATTTAATATTTTAC
332948 TTATTTAAT-TTTT
1 TTATTTAATATTTT
332961 TTTGCAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:334658 original size:27 final size:27
Alignment explanation
Indices: 334628--334688 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
334618 AGCCATATAT
*
334628 GATGCCGCCACCACCTTTCCATTACCA
1 GATGCCGCCACCACCATTCCATTACCA
* * * *
334655 GATGCCGCCGCCGCCATTCCCTTACCC
1 GATGCCGCCACCACCATTCCATTACCA
334682 GATGCCG
1 GATGCCG
334689 TCGCCGTCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.16, C:0.46, G:0.18, T:0.20
Consensus pattern (27 bp):
GATGCCGCCACCACCATTCCATTACCA
Found at i:348250 original size:21 final size:19
Alignment explanation
Indices: 348208--348278 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
348198 TAATAAAATA
* *
348208 AAAATAAGAAA-AATAAAT
1 AAAATAAAAAATAATAACT
348226 -AAATAAATAAATAATACACT
1 AAAATAAA-AAATAATA-ACT
*
348246 AAAATTAAAAAAAGAATAACT
1 AAAA-T-AAAAAATAATAACT
348267 AAAATAAAAAAT
1 AAAATAAAAAAT
348279 TGCTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
17 6 0.14
18 3 0.07
19 10 0.23
20 3 0.07
21 10 0.23
22 8 0.19
23 3 0.07
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAATAATAACT
Found at i:348263 original size:22 final size:20
Alignment explanation
Indices: 348226--348277 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
348216 AAAAATAAAT
* *
348226 AAATAAATAAATAATACACTA
1 AAATAAAAAAAGAATA-ACTA
348247 AAATTAAAAAAAGAATAACTA
1 AAA-TAAAAAAAGAATAACTA
348268 AAATAAAAAA
1 AAATAAAAAA
348278 TTGCTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 10 0.36
22 11 0.39
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (20 bp):
AAATAAAAAAAGAATAACTA
Found at i:348264 original size:37 final size:37
Alignment explanation
Indices: 348223--348293 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
348213 AAGAAAAATA
*
348223 AATAAAT-AAATAAATAATACACTAAAATTAAAAAAAG
1 AATAAATAAAATAAAAAAT-CACTAAAATTAAAAAAAG
* **
348260 AATAACTAAAATAAAAAATTGCTAAAATTAAAAA
1 AATAAATAAAATAAAAAATCACTAAAATTAAAAA
348294 GGAAAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 19 0.66
38 10 0.34
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (37 bp):
AATAAATAAAATAAAAAATCACTAAAATTAAAAAAAG
Found at i:349508 original size:3 final size:3
Alignment explanation
Indices: 349500--349557 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
349490 AATCTGTAAA
* * * *
349500 AAT AAT AAT AAA AAT ATT AAT AAG AAT AAT AAT AAA AAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT
349547 AAAT AAT AAT A
1 -AAT AAT AAT A
349558 TTTTTTTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 35 0.76
4 11 0.24
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:349511 original size:12 final size:12
Alignment explanation
Indices: 349496--349557 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
349486 AAAAAATCTG
349496 TAAAAATAATAA
1 TAAAAATAATAA
*
349508 TAAAAATATTAA
1 TAAAAATAATAA
*
349520 TAAGAATAATAA
1 TAAAAATAATAA
349532 TAAAAATAAATAA
1 TAAAAAT-AATAA
*
349545 -ATAAATAATAA
1 TAAAAATAATAA
349556 TA
1 TA
349558 TTTTTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
11 5 0.12
12 33 0.77
13 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:349912 original size:84 final size:84
Alignment explanation
Indices: 349799--349961 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 84
349789 AATCGTCAGT
* * *
349799 TTTTGTCGACAGATAGCCCTTCTCGCCTTGAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGC
1 TTTTGTCGACAGATAACCCTTCTAGCCTTGAGCTATACTACAAATGATGTGCCTTTGAGCTGAGC
349864 GTAGTCGAACTCGAAGGTA
66 GTAGTCGAACTCGAAGGTA
* * * * * *
349883 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTTGAGCTTAGT
1 TTTTGTCGACAGATAACCCTTCTAGCCTTGAGCTATACTACAAATGATGTGCCTTTGAGCTGAGC
349948 GTAGTCGAACTCGA
66 GTAGTCGAACTCGA
349962 TGGTCTTTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (84 bp):
TTTTGTCGACAGATAACCCTTCTAGCCTTGAGCTATACTACAAATGATGTGCCTTTGAGCTGAGC
GTAGTCGAACTCGAAGGTA
Found at i:350115 original size:34 final size:36
Alignment explanation
Indices: 350036--350119 Score: 127
Period size: 38 Copynumber: 2.3 Consensus size: 36
350026 CAAAGGTTGG
350036 TGTTTCAAGAGAAACTGTCTCAAGAGAGTAAAAATTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAG-AAAAA-TTT
*
350074 TGTTTCAAGGGAAACTGTCTCAAGAGAG-AAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAATTT
350108 TGTTTCAAGAGA
1 TGTTTCAAGAGA
350120 GACAAAACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 13 0.30
36 4 0.09
38 27 0.61
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAATTT
Found at i:350126 original size:21 final size:20
Alignment explanation
Indices: 350093--350134 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 20
350083 GGAAACTGTC
350093 TCAAGAGAGAAAA-TTTGTT
1 TCAAGAGAGAAAACTTTGTT
350112 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAG--AAAACTTTGTT
350134 T
1 T
350135 TGAGTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (20 bp):
TCAAGAGAGAAAACTTTGTT
Found at i:350692 original size:253 final size:253
Alignment explanation
Indices: 350248--350725 Score: 609
Period size: 253 Copynumber: 1.9 Consensus size: 253
350238 TACGATTCTC
* * * * *
350248 TTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATT
1 TTCGTCGTGAAGTTGAAACCGCGGATGACCCCTTCGTCGTGAAGTTGAGCATGGAATTGGATATC
* ** * *
350313 CTTCGTCGTGAAGTTGAAATCCAATGTAAGTTGCGTTGTTCCGTGGCCAATATCATTCGCTGTGA
66 CTTCGTCGTGAAGTTGAAATCCAATGTAAGTTGCATTGTTCCAAGGCCAATATCATCCGCCGTGA
*** ** *
350378 AGTTGAAATTGACTCTGAAACTGGAAAGTTTATTGACAGACACTCCTTCTTTGAGTTGGATATCC
131 AGTTGAAATTGACTCTGAAACTGGAAAGCCCATTGACAGACACTCCAGCTTTGAATTGGATATCC
*
350443 TTAGTCGTGAAGTTAAAATCCAATCTAGAGATGGATGTTGCTTGTATGCATGATTCCA
196 TTAGCCGTGAAGTTAAAATCCAATCTAGAGATGGATGTTGCTTGTATGCATGATTCCA
* *
350501 TTCGTCGTGAAGTTGAAACCGCGGGTGGCCCCTTCGTCGTGAAGTTGAGCATGGAATTGGATATC
1 TTCGTCGTGAAGTTGAAACCGCGGATGACCCCTTCGTCGTGAAGTTGAGCATGGAATTGGATATC
* * * * *
350566 CTTCGTTGTGAAGTTGAAATCCAA-GTAAGTTGTATTGTTTCAAGTCCAATATCCTCCGCCGTGA
66 CTTCGTCGTGAAGTTGAAATCCAATGTAAGTTGCATTGTTCCAAGGCCAATATCATCCGCCGTGA
** * * * * * **
350630 AGTTGAAATTGGTTCTGAAACTGGGAAGCCCCTTCGCCGTGA-AGTTGAGCTTTGAATTGGATAT
131 AGTTGAAATTGACTCTGAAACTGGAAAGCCCATT-GAC-AGACACTCCAGCTTTGAATTGGATAT
* *
350694 CCTTCGCCGTGAAGTTGAAATCCAATCTAGAG
194 CCTTAGCCGTGAAGTTAAAATCCAATCTAGAG
350726 TTGGCATGAT
Statistics
Matches: 188, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
252 58 0.31
253 128 0.68
254 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (253 bp):
TTCGTCGTGAAGTTGAAACCGCGGATGACCCCTTCGTCGTGAAGTTGAGCATGGAATTGGATATC
CTTCGTCGTGAAGTTGAAATCCAATGTAAGTTGCATTGTTCCAAGGCCAATATCATCCGCCGTGA
AGTTGAAATTGACTCTGAAACTGGAAAGCCCATTGACAGACACTCCAGCTTTGAATTGGATATCC
TTAGCCGTGAAGTTAAAATCCAATCTAGAGATGGATGTTGCTTGTATGCATGATTCCA
Found at i:351068 original size:106 final size:104
Alignment explanation
Indices: 350876--351087 Score: 268
Period size: 106 Copynumber: 2.0 Consensus size: 104
350866 ATCCAAATAT
* * *
350876 TTGTGCTGTTTCGAGGCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAACTAGAAAATT
1 TTGTGCTGTCTCGAGGCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTGAAACTAGAAAATT
*
350941 GTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAATTTGAGC
66 GTTTGTTGA-A-CCAGCCGCCCCTTCGCTGTGAAGTTGAGC
* *
350982 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTGAATGAAACTA-AA
1 TTGTGCTGTCTCGAGGCCAATATCCTTCGCTGTGAAGTTGAAATTAACTC----TGAAACTAGAA
* *
351046 TAGTTGTTTGTTG-A-CAGTCGCCCCTTCGCTGTGAAGTTGAGC
62 -AATTGTTTGTTGAACCAGCCGCCCCTTCGCTGTGAAGTTGAGC
351088 AACCACCATT
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
106 71 0.76
108 1 0.01
109 2 0.02
110 19 0.20
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (104 bp):
TTGTGCTGTCTCGAGGCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTGAAACTAGAAAATT
GTTTGTTGAACCAGCCGCCCCTTCGCTGTGAAGTTGAGC
Found at i:354928 original size:21 final size:20
Alignment explanation
Indices: 354904--354956 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
354894 AAAAACAAAC
354904 AAATAAATAAA-AAATACACTA
1 AAATAAA-AAATAAATA-ACTA
354925 AAATTAAAAAATAAATAACTA
1 AAA-TAAAAAATAAATAACTA
354946 AAATAAAAAAT
1 AAATAAAAAAT
354957 GCTAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.27
21 13 0.43
22 9 0.30
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAAAAATAAATAACTA
Found at i:355791 original size:37 final size:37
Alignment explanation
Indices: 355750--355828 Score: 124
Period size: 37 Copynumber: 2.1 Consensus size: 37
355740 CTTTTCGTCC
355750 TACTAAAATTCAAAATT-TTAAAAATATGATAGAATTT
1 TACTAAAATTC-AAATTCTTAAAAATATGATAGAATTT
* *
355787 TACTAGAATTCAAATTCTTAAAAATATGATAGAGTTT
1 TACTAAAATTCAAATTCTTAAAAATATGATAGAATTT
355824 TACTA
1 TACTA
355829 TTATTTAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 5 0.13
37 34 0.87
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (37 bp):
TACTAAAATTCAAATTCTTAAAAATATGATAGAATTT
Found at i:356561 original size:27 final size:30
Alignment explanation
Indices: 356523--356601 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 30
356513 TATTTTATTT
356523 TATATT-TCTATGATTACTATTTTT-AGTTA
1 TATATTAT-TATGATTACTATTTTTCAGTTA
* *
356552 -ATATTA-TATG-TATATTATTTTTCATTTA
1 TATATTATTATGAT-TACTATTTTTCAGTTA
* *
356580 TTTATTATTATTATTACTATTT
1 TATATTATTATGATTACTATTT
356602 AGTATTTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
26 1 0.03
27 13 0.33
28 9 0.23
29 5 0.13
30 10 0.26
31 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (30 bp):
TATATTATTATGATTACTATTTTTCAGTTA
Found at i:356638 original size:2 final size:2
Alignment explanation
Indices: 356631--356655 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
356621 CATACATTTT
356631 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
356656 TATTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:358352 original size:23 final size:23
Alignment explanation
Indices: 358326--358394 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
358316 CACCACAGCT
*
358326 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
358349 CGTAGAATTGCATCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
358372 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
358395 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:358573 original size:103 final size:103
Alignment explanation
Indices: 358410--358622 Score: 363
Period size: 103 Copynumber: 2.1 Consensus size: 103
358400 TAATGTCCAT
* * * *
358410 AAGGACTACATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
358475 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
358513 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
358578 GACTTCACACATGTTCCAAAGAATACATATATGTTCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
358616 AAGGACC
1 AAGGACC
358623 GCGTAGACCC
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:360351 original size:21 final size:21
Alignment explanation
Indices: 360309--360353 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
360299 TTTTGTTCGT
* * *
360309 TTGAAGGGGTATCGGTTTCCC
1 TTGAAGGGGTACCGATTCCCC
*
360330 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
360351 TTG
1 TTG
360354 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:365189 original size:22 final size:22
Alignment explanation
Indices: 365161--365215 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
365151 GCTACCCTAT
365161 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
365183 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
365205 CAAACCTTTGA
1 CAAACCTTTGA
365216 CCAAACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:367453 original size:106 final size:106
Alignment explanation
Indices: 366177--367451 Score: 1904
Period size: 106 Copynumber: 12.0 Consensus size: 106
366167 ATATCGTGCC
* * * *
366177 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
366242 AAATTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
366283 ACTCCAGACAACACAAGTTTAACTTCACGACGAAAGAACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
366348 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
366389 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
366453 AATTTCAGAGCCAATTTCAAATTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
366494 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
366559 AATTTCAGAGCCAATTTCAACGTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
366600 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
366665 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
366706 ACTCCAAACAACGCAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
366771 AATTTCAGAGACAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
366812 ACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
366877 AATTTTAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
366918 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** *
366983 AATTTTGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
367024 ACTCGAGGCAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
367089 AATTTCAGAGACAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
367130 ACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
367195 AATTTTAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
367236 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** *
367301 AATTTTGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
367342 ACTCGAGGCAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
367407 GATATCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
367448 ACTC
1 ACTC
367452 GAAACAATGC
Statistics
Matches: 1063, Mismatches: 105, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
105 97 0.09
106 966 0.91
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:368291 original size:37 final size:37
Alignment explanation
Indices: 368201--368305 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
368191 CCTTTTCGTC
*
368201 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
368238 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
368275 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
368306 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:368943 original size:2 final size:2
Alignment explanation
Indices: 368936--368968 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
368926 TTCCTAACGT
368936 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
368969 TCTTATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:369103 original size:2 final size:2
Alignment explanation
Indices: 369096--369126 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
369086 TACATACATT
369096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
369127 TATTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:370246 original size:3 final size:3
Alignment explanation
Indices: 370238--370293 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
370228 AATCTGTAAA
* *
370238 AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT AAT AAT AAA AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
370287 AAT AAT A
1 AAT AAT A
370294 TTTTTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:374538 original size:35 final size:37
Alignment explanation
Indices: 374467--374539 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
374457 GTTGAAAAAT
** * *
374467 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATAAATTCTTTAAAAAATTAAAAATCATAAA
*
374504 ATTTATATAAATT-TTTACAAAATTAAAAAT-ATAAA
1 ATTTATATAAATTCTTTAAAAAATTAAAAATCATAAA
374539 A
1 A
374540 AAATTTAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 6 0.19
36 14 0.45
37 11 0.35
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (37 bp):
ATTTATATAAATTCTTTAAAAAATTAAAAATCATAAA
Found at i:374890 original size:17 final size:18
Alignment explanation
Indices: 374868--374907 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
374858 ATGTGAATTC
374868 CATTCCCA-AGAATCTCT
1 CATTCCCAGAGAATCTCT
374885 CATTCCCATGAGAATCTCT
1 CATTCCCA-GAGAATCTCT
374904 CATT
1 CATT
374908 TACATTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (18 bp):
CATTCCCAGAGAATCTCT
Found at i:374917 original size:19 final size:19
Alignment explanation
Indices: 374876--374918 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
374866 TCCATTCCCA
*
374876 AGAATCTCTCATTCCCATG
1 AGAATCTCTCATTCACATG
* *
374895 AGAATCTCTCATTTACATT
1 AGAATCTCTCATTCACATG
374914 AGAAT
1 AGAAT
374919 TTCACATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (19 bp):
AGAATCTCTCATTCACATG
Found at i:379022 original size:35 final size:35
Alignment explanation
Indices: 378974--379045 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 35
378964 ACTAAATATG
* **
378974 TAGTTTATCTTAAATTTAAAATTATTTCAAATTAAA
1 TAGTTAATCTTAAAAATAAAATTATTTCAAA-TAAA
* *
379010 TAGTTAAT-TTAAAAATAATATTATTTTAAATAAA
1 TAGTTAATCTTAAAAATAAAATTATTTCAAATAAA
379044 TA
1 TA
379046 AATAAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 6 0.19
35 18 0.58
36 7 0.23
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (35 bp):
TAGTTAATCTTAAAAATAAAATTATTTCAAATAAA
Found at i:384137 original size:2 final size:2
Alignment explanation
Indices: 384125--384155 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
384115 TTAGTATGTC
*
384125 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
384156 TGCTCGGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:389951 original size:7 final size:7
Alignment explanation
Indices: 389939--389964 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
389929 GTGTCAGTCC
389939 ATTCCCA
1 ATTCCCA
389946 ATTCCCA
1 ATTCCCA
389953 ATTCCCA
1 ATTCCCA
389960 ATTCC
1 ATTCC
389965 AAATCCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.31
Consensus pattern (7 bp):
ATTCCCA
Found at i:407569 original size:14 final size:14
Alignment explanation
Indices: 407552--407578 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
407542 AGGAGGTCAA
407552 GGAAGATGAAAAGG
1 GGAAGATGAAAAGG
407566 GGAAGATGAAAAG
1 GGAAGATGAAAAG
407579 AGAGATACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.41, T:0.07
Consensus pattern (14 bp):
GGAAGATGAAAAGG
Found at i:407907 original size:27 final size:28
Alignment explanation
Indices: 407876--407933 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
407866 AATTATATAC
*
407876 TTAATTTACGATTATAATT-TTAAATCT
1 TTAATTTACGATTATAATTAATAAATCT
* *
407903 TTAATTTATGATTATGATTAATAAATCT
1 TTAATTTACGATTATAATTAATAAATCT
407931 TTA
1 TTA
407934 TTGTAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (28 bp):
TTAATTTACGATTATAATTAATAAATCT
Found at i:409470 original size:23 final size:23
Alignment explanation
Indices: 409439--409530 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
409429 CACCACAGCT
*
409439 CGTATAATTGAACCGAAGTGCCA
1 CGTAGAATTGAACCGAAGTGCCA
* * *
409462 CGTAGAATT-ACATCGAAGTGTCG
1 CGTAGAATTGA-ACCGAAGTGCCA
* * * *
409485 CGTAGAATTGCATCGGAGTGCCG
1 CGTAGAATTGAACCGAAGTGCCA
* *
409508 CGTAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGAACCGAAGTGCCA
409531 TATAATAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
22 1 0.02
23 57 0.98
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGAACCGAAGTGCCA
Found at i:409788 original size:30 final size:30
Alignment explanation
Indices: 409747--409815 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
409737 ACATAATTTG
* *
409747 TATCACGTAGACATATTATTTTCC-TACCTT
1 TATCACATAGACATATCA-TTTCCATACCTT
409777 TATCACATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
409807 TATCACATA
1 TATCACATA
409816 ACTCATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 5 0.14
30 31 0.86
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:410319 original size:19 final size:19
Alignment explanation
Indices: 410295--410348 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
410285 TTTAAAAGAT
*
410295 TGCATCGATGCA-CTTCATG
1 TGCATCGATACACCTT-ATG
*
410314 TGCATCGGTACACCTTATG
1 TGCATCGATACACCTTATG
*
410333 TGCATCGGTACACCTT
1 TGCATCGATACACCTT
410349 GAATAATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 29 0.91
20 3 0.09
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.31
Consensus pattern (19 bp):
TGCATCGATACACCTTATG
Found at i:416430 original size:23 final size:23
Alignment explanation
Indices: 416404--416471 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
416394 CACCACAGCT
*
416404 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * * *
416427 CGTAGAATTACACCGGAGTACCG
1 CGTAGAATTGCACCGAAGTGCCA
*
416450 CGTAGAATTGCA-CGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
416472 TATAATAATG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 7 0.19
23 29 0.81
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:416717 original size:30 final size:30
Alignment explanation
Indices: 416681--416749 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
416671 ACATAATTTG
*
416681 TATCACATAGACATATTATTTTCC-TACCTT
1 TATCACATAGACATATCA-TTTCCATACCTT
416711 TATCACATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
416741 TATCACATA
1 TATCACATA
416750 ACTCATATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
29 5 0.14
30 32 0.86
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:417239 original size:56 final size:55
Alignment explanation
Indices: 417134--417241 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 55
417124 CATATATCGT
** * *
417134 ATTCGATGTTTGTATTTAATGGGGTGCATCGATGCACTCCTTATACATCGATGGC
1 ATTCGATGTTTGTATTTAAAAGAGTGCATCGATGCACTCCATATACATCGATGGC
* * *
417189 ATTCGATGTTTGTATTTTAAAAGAGTGCATCGATGCACTTCATGTGCATCGAT
1 ATTCGATGTTTGTA-TTTAAAAGAGTGCATCGATGCACTCCATATACATCGAT
417242 ACACCTTGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 14 0.31
56 31 0.69
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (55 bp):
ATTCGATGTTTGTATTTAAAAGAGTGCATCGATGCACTCCATATACATCGATGGC
Found at i:418599 original size:30 final size:30
Alignment explanation
Indices: 418558--418635 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 30
418548 TCTTTAGTAT
*
418558 TCGGGTCGGATTTTTTAAAAAAATTTGGGA
1 TCGGGTCGGATTTTTTAAAAAAATTCGGGA
* *
418588 TCGGGTAGGATTTTTTTTAAAAAAATTCGGGT
1 TCGGGTCGGA--TTTTTTAAAAAAATTCGGGA
*
418620 TCGGGTCGGGTTTTTT
1 TCGGGTCGGATTTTTT
418636 TAAGTGTGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 15 0.37
32 26 0.63
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (30 bp):
TCGGGTCGGATTTTTTAAAAAAATTCGGGA
Found at i:418725 original size:92 final size:95
Alignment explanation
Indices: 418586--418759 Score: 264
Period size: 93 Copynumber: 1.9 Consensus size: 95
418576 AAAAATTTGG
* * *
418586 GATCGGGTAGGATTTTTTTTAAAAAAATTCGGGTTCGGGTCGGGTTTTTTTAAGTGTGAT-TTCG
1 GATCGGGTAGGATTTTTTATAAAAAAATACGGGTTCGAGTCGGGTTTTTTTAAGTGTGATATTCG
418650 GGCCAGGTCGGGTTTTTAAAAAAAAATCAT
66 GGCCAGGTCGGGTTTTTAAAAAAAAATCAT
* *
418680 GATC-GGTCGGATTTTTTATAAAAAAA-ACGGGTTCGAGTCGGGTTTTTTTAAGTTTGATATTCG
1 GATCGGGTAGGATTTTTTATAAAAAAATACGGGTTCGAGTCGGGTTTTTTTAAGTGTGATATTCG
* *
418743 GGTCGGGTCGGGTTTTT
66 GGCCAGGTCGGGTTTTT
418760 TTAATTGTGA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
92 29 0.40
93 39 0.54
94 4 0.06
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.39
Consensus pattern (95 bp):
GATCGGGTAGGATTTTTTATAAAAAAATACGGGTTCGAGTCGGGTTTTTTTAAGTGTGATATTCG
GGCCAGGTCGGGTTTTTAAAAAAAAATCAT
Found at i:418726 original size:30 final size:29
Alignment explanation
Indices: 418655--418726 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
418645 TTTCGGGCCA
*
418655 GGTCGGGTTTTTAAAAAAAAATCATGATC
1 GGTCGGGTTTTTAAAAAAAAATCAGGATC
* * *
418684 GGTCGGATTTTTTATAAAAAAAA-CGGGTTC
1 GGTCGG-GTTTTTA-AAAAAAAATCAGGATC
418714 GAGTCGGGTTTTT
1 G-GTCGGGTTTTT
418727 TTAAGTTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 6 0.17
30 16 0.46
31 13 0.37
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.35
Consensus pattern (29 bp):
GGTCGGGTTTTTAAAAAAAAATCAGGATC
Found at i:418760 original size:34 final size:33
Alignment explanation
Indices: 418707--418790 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
418697 ATAAAAAAAA
*
418707 CGGGTTCGAGTCGGGTTTTTTTAAGTT-TGATATT
1 CGGG-TCGGGTCGGGTTTTTTTAA-TTGTGATATT
418741 CGGGTCGGGTCGGGTTTTTTTAATTGTGATATT
1 CGGGTCGGGTCGGGTTTTTTTAATTGTGATATT
*
418774 TGGGTCGGGTTCGGGTT
1 CGGGTCGGG-TCGGGTT
418791 GGGTTTAGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 2 0.04
33 33 0.72
34 11 0.24
ACGTcount: A:0.11, C:0.10, G:0.36, T:0.44
Consensus pattern (33 bp):
CGGGTCGGGTCGGGTTTTTTTAATTGTGATATT
Found at i:424929 original size:22 final size:23
Alignment explanation
Indices: 424888--424931 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
424878 CATAAAGTAA
* *
424888 GAGAAATTTTCTTTTTGATTTTT
1 GAGAAATTTTCCTTTGGATTTTT
424911 GAGAAA-TTTCCTTTGGATTTT
1 GAGAAATTTTCCTTTGGATTTT
424932 GGATTATGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.55
Consensus pattern (23 bp):
GAGAAATTTTCCTTTGGATTTTT
Found at i:426999 original size:22 final size:21
Alignment explanation
Indices: 426952--427010 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
426942 ATATGAATTA
*
426952 GGGTATCGATACCA-TCTTAG
1 GGGTATCGATACCATTCATAG
*
426972 GGGTATCGATACCATTGCATGG
1 GGGTATCGATACCATT-CATAG
426994 GGGTATCGATACCATTC
1 GGGTATCGATACCATTC
427011 GAGCATTCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 14 0.40
21 2 0.06
22 19 0.54
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (21 bp):
GGGTATCGATACCATTCATAG
Found at i:428534 original size:34 final size:34
Alignment explanation
Indices: 428486--428567 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
428476 ACTTGTCTTA
428486 GAGCTTAAATCGAGCTCAAAATCGAACTTGAATC
1 GAGCTTAAATCGAGCTCAAAATCGAACTTGAATC
* *
428520 GAGCTTGAAA-CGAGCTCAAAATCGAGCTTGAATT
1 GAGCTT-AAATCGAGCTCAAAATCGAACTTGAATC
* *
428554 GAGTTTCAATCGAG
1 GAGCTTAAATCGAG
428568 TTTGAGTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.05
34 37 0.88
35 3 0.07
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (34 bp):
GAGCTTAAATCGAGCTCAAAATCGAACTTGAATC
Found at i:432955 original size:22 final size:23
Alignment explanation
Indices: 432914--432957 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
432904 CATAAAGTAA
* *
432914 GAGAAATTTTCTTTTTGATTTTT
1 GAGAAATTTTCCTTTGGATTTTT
432937 GAGAAA-TTTCCTTTGGATTTT
1 GAGAAATTTTCCTTTGGATTTT
432958 GGATTATGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.55
Consensus pattern (23 bp):
GAGAAATTTTCCTTTGGATTTTT
Found at i:435317 original size:21 final size:21
Alignment explanation
Indices: 435291--435345 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
435281 TGGAGCGTGG
435291 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
435312 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
435333 GGGTATCGGTACC
1 GGGTATCGGTACC
435346 TAAAGTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:435412 original size:20 final size:21
Alignment explanation
Indices: 435379--435443 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 21
435369 CGACCGTTAT
435379 ATGCATTA-GGGTATCGATACC
1 ATGCA-TAGGGGTATCGATACC
*
435400 AT-CTTAGGGGTATCGATACC
1 ATGCATAGGGGTATCGATACC
*
435420 ATTGCATGGGGGTATCGATACC
1 A-TGCATAGGGGTATCGATACC
435442 AT
1 AT
435444 TCGAGCATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 4 0.11
22 17 0.45
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (21 bp):
ATGCATAGGGGTATCGATACC
Found at i:435434 original size:22 final size:21
Alignment explanation
Indices: 435387--435445 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
435377 ATATGCATTA
*
435387 GGGTATCGATACCA-TCTTAG
1 GGGTATCGATACCATTCATAG
*
435407 GGGTATCGATACCATTGCATGG
1 GGGTATCGATACCATT-CATAG
435429 GGGTATCGATACCATTC
1 GGGTATCGATACCATTC
435446 GAGCATTCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 14 0.40
21 2 0.06
22 19 0.54
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (21 bp):
GGGTATCGATACCATTCATAG
Found at i:436985 original size:21 final size:22
Alignment explanation
Indices: 436916--437018 Score: 117
Period size: 23 Copynumber: 4.7 Consensus size: 22
436906 ACCCCGTGGA
436916 GGGTATCGATACC-A-TC-AGG
1 GGGTATCGATACCTATTCAAGG
*
436935 GGGTATCGATACCCATTCAAGG
1 GGGTATCGATACCTATTCAAGG
*
436957 ATGGTATCGATACCTATTGC-A-G
1 -GGGTATCGATACCTATT-CAAGG
436979 GGGTATCGATACCTATTCAAAGG
1 GGGTATCGATACCTATTC-AAGG
437002 GGGTATCGATACTCTAT
1 GGGTATCGATAC-CTAT
437019 GCACAAAAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
19 13 0.18
20 2 0.03
21 18 0.25
22 5 0.07
23 29 0.40
24 5 0.07
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (22 bp):
GGGTATCGATACCTATTCAAGG
Found at i:436989 original size:44 final size:44
Alignment explanation
Indices: 436916--437018 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 44
436906 ACCCCGTGGA
436916 GGGTATCGATACC-A-TCAGGGGGTATCGATACCCATTC-AAGG
1 GGGTATCGATACCTATTCAGGGGGTATCGATACCCATTCAAAGG
* *
436957 ATGGTATCGATACCTATTGCA-GGGGTATCGATACCTATTCAAAGG
1 -GGGTATCGATACCTATT-CAGGGGGTATCGATACCCATTCAAAGG
437002 GGGTATCGATACTCTAT
1 GGGTATCGATAC-CTAT
437019 GCACAAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 12 0.23
43 1 0.02
44 30 0.57
45 10 0.19
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
GGGTATCGATACCTATTCAGGGGGTATCGATACCCATTCAAAGG
Found at i:440321 original size:22 final size:21
Alignment explanation
Indices: 440279--440318 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
440269 GAGCTTATTT
*
440279 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
440300 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
440319 ACAATTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:442272 original size:22 final size:20
Alignment explanation
Indices: 442225--442299 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
442215 ATATGCATTA
442225 GGGTATCGATACCATCTGAG
1 GGGTATCGATACCATCTGAG
*
442245 GGGTATCGGTACCAT-TGCATG
1 GGGTATCGATACCATCTG-A-G
*
442266 TGGGTATCGATACC-TATG-G
1 -GGGTATCGATACCATCTGAG
442285 GGGTATCGATACCAT
1 GGGTATCGATACCAT
442300 TCGAACATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
18 13 0.27
19 4 0.08
20 15 0.31
21 2 0.04
22 14 0.29
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATCTGAG
Found at i:442290 original size:18 final size:19
Alignment explanation
Indices: 442225--442299 Score: 80
Period size: 18 Copynumber: 3.8 Consensus size: 19
442215 ATATGCATTA
*
442225 GGGTATCGATACCATCTGAG
1 GGGTATCGATACCATATG-G
* *
442245 GGGTATCGGTACCATTGCATGT
1 GGGTATCGATACCA-T--ATGG
442267 GGGTATCGATACC-TATGG
1 GGGTATCGATACCATATGG
442285 GGGTATCGATACCAT
1 GGGTATCGATACCAT
442300 TCGAACATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 16 0.35
19 1 0.02
20 14 0.30
21 1 0.02
22 12 0.26
23 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (19 bp):
GGGTATCGATACCATATGG
Found at i:444122 original size:14 final size:15
Alignment explanation
Indices: 444095--444123 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
444085 ATATGATATA
444095 TCTTATGTTTTATGC
1 TCTTATGTTTTATGC
444110 TCTTATG-TTTATGC
1 TCTTATGTTTTATGC
444124 AGATCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TCTTATGTTTTATGC
Found at i:447185 original size:18 final size:18
Alignment explanation
Indices: 447144--447188 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
447134 CAAAATTCTC
*
447144 TATATTTATA-AATTAAA
1 TATATTTAAATAATTAAA
*
447161 CAT-TTTAAATAATTAAA
1 TATATTTAAATAATTAAA
447178 TATATTTAAAT
1 TATATTTAAAT
447189 TAATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 5 0.22
17 11 0.48
18 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATATTTAAATAATTAAA
Found at i:447822 original size:23 final size:23
Alignment explanation
Indices: 447779--447824 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
447769 ACATATTAGA
**
447779 TAGCGCTTATATAATGTAATAGG
1 TAGCGCTTATATAATAAAATAGG
447802 TAGCGCTTATATAATAAAATAGG
1 TAGCGCTTATATAATAAAATAGG
447825 CATTTAACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAGG
Found at i:448313 original size:115 final size:115
Alignment explanation
Indices: 448169--448384 Score: 337
Period size: 115 Copynumber: 1.9 Consensus size: 115
448159 ATTATGGACA
* *
448169 AAATGTATCGACACAAATTACACAAGTGTCGATACTTTATTCT-GACCTATTTTCTCATAAAACC
1 AAATGTATCGACACAAACTACACAAGTGTCGATACATTATT-TAGACCTATTTTCTCATAAAACC
*
448233 GGTAAATTTAAACCGGTTACATTGCAAATTTACCTATTGCATTGCAAATTT
65 GGTAAATTTAAACCGGGTACATTGCAAATTTACCTATTGCATTGCAAATTT
*
448284 AAATGTATCGACACAAACTATA-AAGGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACC
1 AAATGTATCGACACAAACTACACAA-GTGTCGATACATTATTTAGACCTATTTTCTCATAAAACC
* * *
448348 GGTATATTTATACCGGGTACATTGTAAATTTACCTAT
65 GGTAAATTTAAACCGGGTACATTGCAAATTTACCTAT
448385 AACATTGTAA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
114 3 0.03
115 89 0.97
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (115 bp):
AAATGTATCGACACAAACTACACAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCG
GTAAATTTAAACCGGGTACATTGCAAATTTACCTATTGCATTGCAAATTT
Found at i:448583 original size:313 final size:309
Alignment explanation
Indices: 447979--448588 Score: 1031
Period size: 313 Copynumber: 2.0 Consensus size: 309
447969 TTGGAAAAAA
**
447979 GTATCGACACAAACTATAAAGGTGTCTATTATTTAGACCTATTTTCTCATAAAACTTGTATATTT
1 GTATCGACACAAACTATAAAGGTGTCTATTATTTAGACCTATTTTCTCATAAAACCGGTATATTT
* * *
448044 ATACCGGGTACATTGCAAATTTACCTATACCATTGTAATTTTTATTTCGATGTATTTGGGATCGA
66 ATACCGGGTACATTGCAAATTTACCTATAACATTGTAATTTTCATTTCAATGTATTTGGGATCGA
* * *
448109 TACAATTTTAAATGTATCGACACGTTATTCTTGCACCTTGTTGGGCATTCATTATGGACAAAATG
131 TACAATTTTAAATGTATCGACACGTTATTATTGCACCTCGTTAGGCATTCATTATGGACAAAATG
*
448174 TATCGACACAAATTACACAAGTGTCGATACTTTATTCTGACCTATTTTCTCATAAAACCGGTAAA
196 TATCGACACAAATTACACAAGTGTCGATACTTTATTCTGACATATTTTCTCATAAAACCGGTAAA
* * *
448239 TTTAAACCGGTTACATTGCAAATTTACCTATTGCATTGCAAATTTAAAT
261 TTTAAACCGATTACATTGCAAATTGACCTATTACATTGCAAATTTAAAT
448288 GTATCGACACAAACTATAAAGGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAT
1 GTATCGACACAAACTATAAAGGTGTC--T--ATTATTTAGACCTATTTTCTCATAAAACCGGTAT
* * *
448353 ATTTATACCGGGTACATTGTAAATTTACCTATAACATTGTAATTTTCGTTTCAATGTTTTTGGGA
62 ATTTATACCGGGTACATTGCAAATTTACCTATAACATTGTAATTTTCATTTCAATGTATTTGGGA
*
448418 TCGATATAATTTTAAATGTATCGACACGTTATTATTGCACCTCGTTAGGCATTCATTATGGACAA
127 TCGATACAATTTTAAATGTATCGACACGTTATTATTGCACCTCGTTAGGCATTCATTATGGACAA
448483 AATGTATCGACACAAATTACACAAGTGTCGATACTTTATTCTGACATATTTTCTCATAAAACCGG
192 AATGTATCGACACAAATTACACAAGTGTCGATACTTTATTCTGACATATTTTCTCATAAAACCGG
*
448548 TAAATTTAAACCGATTACATTGTAAATTGACCTATTACATT
257 TAAATTTAAACCGATTACATTGCAAATTGACCTATTACATT
448589 ATAATTATCG
Statistics
Matches: 280, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
309 26 0.09
311 1 0.00
313 253 0.90
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (309 bp):
GTATCGACACAAACTATAAAGGTGTCTATTATTTAGACCTATTTTCTCATAAAACCGGTATATTT
ATACCGGGTACATTGCAAATTTACCTATAACATTGTAATTTTCATTTCAATGTATTTGGGATCGA
TACAATTTTAAATGTATCGACACGTTATTATTGCACCTCGTTAGGCATTCATTATGGACAAAATG
TATCGACACAAATTACACAAGTGTCGATACTTTATTCTGACATATTTTCTCATAAAACCGGTAAA
TTTAAACCGATTACATTGCAAATTGACCTATTACATTGCAAATTTAAAT
Found at i:448787 original size:195 final size:197
Alignment explanation
Indices: 448288--448839 Score: 605
Period size: 198 Copynumber: 2.8 Consensus size: 197
448278 AAATTTAAAT
* * *
448288 GTATCGACACAAAC-TATAAAGGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTA
1 GTATCGACACAAACTTACAAAAGTGTCGATACTTTA-TTAGACCTATTTTCTCATAAAACCGGTA
* * * *
448352 TATTTATACCGGGTACATTGTAAATTTACCTATAACATTGTAATTTTCGTTTCAATGTTTTTGGG
65 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGTTTCAATGTTTTTGGG
* * * * *
448417 ATCGATATAATTTTAAATGTATCGACACGTTATTATTGCACCTCGTTAGGCATTCATTATGGACA
130 ATCGATACAA-TTTAAATGTATCAACACGTTATGAGTGAACCTCGTTAGGCATTCATTATGGACA
*
448482 AAAT
194 AAAA
* * *
448486 GTATCGACACAAA-TTACACAAGTGTCGATACTTTATTCTGACATATTTTCTCATAAAACCGGTA
1 GTATCGACACAAACTTACAAAAGTGTCGATACTTTATT-AGACCTATTTTCTCATAAAACCGGTA
* * * * * *
448550 AATTTAAACCGATTACATTGTAAATTGACCTATTACATTATAATTATCGGTTTCGATGTTTTTGT
65 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATC-GTTTCAATGTTTTTGG
* * * * *
448615 GATCGATACAATTTAAATGTATCAACACTTTATGCGTGAACCT-GTTTGTGCTTTC-TTTTGGA-
129 GATCGATACAATTTAAATGTATCAACACGTTATGAGTGAACCTCGTTAG-GCATTCATTATGGAC
448677 AAAAA
193 AAAAA
* * * *
448682 GTATCGACACAAACTTA-AAAAGTGTCGATACTTTATGTAGACCTGTTTTATAAT-TAACCGGTA
1 GTATCGACACAAACTTACAAAAGTGTCGATACTTTAT-TAGACCTATTTTCTCATAAAACCGGTA
* ** * ** *
448745 TATGTATATTGGTTACATTGTTAATTTAAATATTACATTATAATTATTTGTTTCAATGTTTTTGG
65 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTA-TCGTTTCAATGTTTTTGG
* **
448810 GGTCGATACTTTTTGAAAATGTATCAACAC
129 GATCGATACAATTT--AAATGTATCAACAC
448840 ATATTCTTAC
Statistics
Matches: 295, Mismatches: 50, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
195 69 0.23
196 47 0.16
197 30 0.10
198 125 0.42
199 24 0.08
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (197 bp):
GTATCGACACAAACTTACAAAAGTGTCGATACTTTATTAGACCTATTTTCTCATAAAACCGGTAT
ATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGTTTCAATGTTTTTGGGA
TCGATACAATTTAAATGTATCAACACGTTATGAGTGAACCTCGTTAGGCATTCATTATGGACAAA
AA
Found at i:451904 original size:199 final size:199
Alignment explanation
Indices: 451564--452568 Score: 1516
Period size: 199 Copynumber: 5.1 Consensus size: 199
451554 TGTTTTTGGG
* * *
451564 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTTTGAATAAAAAGTATCGACACTTGTTA
1 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTA
* *
451629 TATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACTGGTATATTTAGACCATTTACAT
66 TATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACAT
451694 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
131 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
451759 ATGT
196 ATGT
* * *
451763 ATCGACAC-TTTTATGTGCACTTGGTTCTGAAATATATTCTGGACCAAAAGTATCGACACTTGTT
1 ATCGACACTTTTTA-GTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTT
* * * * * *
451827 CTATTTGTGTTGATACTGTTTGTACACCTGATTTCTCAAAAACCGGTATATTTAGACCGGTTATA
65 ATATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACA
* * * *
451892 TTG-CTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTAT
130 -TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
*
451956 ATATGT
194 AAATGT
* *
451962 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTA
1 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTA
* * * *
452027 GATTTGTGTCGATACTTTTTGTACACCTGTTTTTTCAAAAACTGGTATATTTAGACCTTTTACAT
66 TATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACAT
*
452092 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAGATCGACACTTGTTTTAA
131 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
452157 ATGT
196 ATGT
* * *
452161 ATCGACAC-TTTTATGTGCACTTGGTTCTGAAATATATTCTGGACCAAAAGTATCGACACTTGTT
1 ATCGACACTTTTTA-GTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTT
* * * * *
452225 CTATTTGTGTCGATACTGTTTGTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGGTTATA
65 ATATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACA
* * * * * *
452290 TTG-CTAATTTATCTATTATATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTAT
130 -TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
*
452354 ATATGT
194 AAATGT
* * *
452360 ATCGATACTTTTTAGTGCACTTGGTTTTGAAATACAGTT-TGGAGAAAAAGTATCGACACTTGAT
1 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACA-TTCTGGACAAAAAGTATCGACACTTGTT
* *
452424 AGATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCTTTTACA
65 ATATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACA
452489 TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
130 TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
452554 AATGT
195 AATGT
452559 ATCGACACTT
1 ATCGACACTT
452569 GTTTTATTTG
Statistics
Matches: 714, Mismatches: 83, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
198 14 0.02
199 684 0.96
200 16 0.02
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (199 bp):
ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTA
TATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACAT
GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
ATGT
Found at i:452300 original size:398 final size:398
Alignment explanation
Indices: 451564--452568 Score: 1866
Period size: 398 Copynumber: 2.5 Consensus size: 398
451554 TGTTTTTGGG
* * *
451564 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTTTGAATAAAAAGTATCGACACTTGTTA
1 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAGTTTGGAGAAAAAGTATCGACACTTGTTA
* *
451629 TATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACTGGTATATTTAGACCATTTACAT
66 GATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACTGGTATATTTAGACCTTTTACAT
451694 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
131 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
451759 ATGTATCGACACTTTTATGTGCACTTGGTTCTGAAATATATTCTGGACCAAAAGTATCGACACTT
196 ATGTATCGACACTTTTATGTGCACTTGGTTCTGAAATATATTCTGGACCAAAAGTATCGACACTT
*
451824 GTTCTATTTGTGTTGATACTGTTTGTACACCTGATTTCTCAAAAACCGGTATATTTAGACCGGTT
261 GTTCTATTTGTGTCGATACTGTTTGTACACCTGATTTCTCAAAAACCGGTATATTTAGACCGGTT
451889 ATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTT
326 ATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTT
451954 ATATATGT
391 ATATATGT
*
451962 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTA
1 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAGTTTGGAGAAAAAGTATCGACACTTGTTA
*
452027 GATTTGTGTCGATACTTTTTGTACACCTGTTTTTTCAAAAACTGGTATATTTAGACCTTTTACAT
66 GATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACTGGTATATTTAGACCTTTTACAT
*
452092 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAGATCGACACTTGTTTTAA
131 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
452157 ATGTATCGACACTTTTATGTGCACTTGGTTCTGAAATATATTCTGGACCAAAAGTATCGACACTT
196 ATGTATCGACACTTTTATGTGCACTTGGTTCTGAAATATATTCTGGACCAAAAGTATCGACACTT
* *
452222 GTTCTATTTGTGTCGATACTGTTTGTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGGTT
261 GTTCTATTTGTGTCGATACTGTTTGTACACCTGATTTCTCAAAAACCGGTATATTTAGACCGGTT
* *
452287 ATATTGCTAATTTATCTATTATATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTT
326 ATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTT
452352 ATATATGT
391 ATATATGT
* *
452360 ATCGATACTTTTTAGTGCACTTGGTTTTGAAATACAGTTTGGAGAAAAAGTATCGACACTTGATA
1 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAGTTTGGAGAAAAAGTATCGACACTTGTTA
*
452425 GATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCTTTTACAT
66 GATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACTGGTATATTTAGACCTTTTACAT
452490 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
131 GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
452555 ATGTATCGACACTT
196 ATGTATCGACACTT
452569 GTTTTATTTG
Statistics
Matches: 588, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
398 588 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (398 bp):
ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAGTTTGGAGAAAAAGTATCGACACTTGTTA
GATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACTGGTATATTTAGACCTTTTACAT
GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
ATGTATCGACACTTTTATGTGCACTTGGTTCTGAAATATATTCTGGACCAAAAGTATCGACACTT
GTTCTATTTGTGTCGATACTGTTTGTACACCTGATTTCTCAAAAACCGGTATATTTAGACCGGTT
ATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTT
ATATATGT
Found at i:455196 original size:15 final size:15
Alignment explanation
Indices: 455172--455213 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
455162 AGGAGGTTGT
455172 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
* *
455187 GGTTGGGAAGAGGTG
1 GGTTGAGAAGAGCTG
455202 GGTTGAGAAGAG
1 GGTTGAGAAGAG
455214 ATTTGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.02, G:0.52, T:0.19
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:455849 original size:199 final size:198
Alignment explanation
Indices: 455567--456640 Score: 1437
Period size: 199 Copynumber: 5.5 Consensus size: 198
455557 CAATTTAAAC
** * * * *
455567 CGGTATATTTAGACTAGTTTTATTATTAATTTACCTATTATATTATAATTATGGTTTTCGATTTT
1 CGGTATATTTAGACCGGTTATATTACTAATTTACCTATTACATTATAATTATGGTTTTCGATGTT
*
455632 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTCAGTGCACTTGGTTTTGAAATACATT
66 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATT
455697 CTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTCTCAA
131 CTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTCTCAA
455762 AACA
196 AA-A
* *
455766 CGGTATATTTAGACCGATTATATTACTAATTTACCTATTACATTATAATTATAGTTTTCGATGTT
1 CGGTATATTTAGACCGGTTATATTACTAATTTACCTATTACATTATAATTATGGTTTTCGATGTT
* *
455831 TTTGGGATCGACACTTGTTACAAATGTATTGACACTTTTTAGTGCACTTGGTTTTGAAATACATT
66 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATT
* *
455896 CTGGACAAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAA
131 CTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTCTCAA
455961 AAA
196 AAA
* *
455964 CTGGTATATTTAGACCGGTTATATTTCTAATTTATCTATTACATTATAATTATGGTTTTCGATGT
1 C-GGTATATTTAGACCGGTTATATTACTAATTTACCTATTACATTATAATTATGGTTTTCGATGT
456029 TTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAT
65 TTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAT
*
456094 TCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGATTTTCTCA
130 TCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTCTCA
456159 AAAA
195 AAAA
* * *
456163 TCGGTATATTTAGACCGGTTATATTGCTAATTTACATATTACATTATAATTATAGTTTTCGATGT
1 -CGGTATATTTAGACCGGTTATATTACTAATTTACCTATTACATTATAATTATGGTTTTCGATGT
* * * * *
456228 TTTTTGGATCGACACTT-TT-T--A-G--T-G-CACTTGGTTT--TGAAATAT-ATTCTGGACAA
65 TTTTGGGATCGACACTTGTTATAAATGTATCGACACTT--TTTAGTGCACT-TGGTT-TTGA-AA
* * * * *** * **
456281 -AAAGTATCGA-CACTTGT-TCG--ATTTGTGTCGA------T----ACTTTTTGTACACTTGTT
125 TACATTCTGGACCAAAAGTATCGACACTTGT-TCGATTTGTGTCGATACTTTTTGTACACCGGTT
456331 TTCTCAAAAA
189 TTCTCAAAAA
* *
456341 CCGGTATATTTAGGCCGGTTATATTTCTAATTTACCTATTACATTATAATTATGGTTTTCGATGT
1 -CGGTATATTTAGACCGGTTATATTACTAATTTACCTATTACATTATAATTATGGTTTTCGATGT
* * *
456406 TTTTGGGATCGATACTAGTTATAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAAATACAT
65 TTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAT
* * *
456471 TCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTCTCA
130 TCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTCTCA
456536 AAAA
195 AAAA
* * *
456540 CCAGTATATTTAGATCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGT
1 -CGGTATATTTAGACCGGTTATATTACTAATTTACCTATTACATTATAATTATGGTTTTCGATGT
* *
456605 TTTTGGGATCGACACTTATTTTAAATGTATCGACAC
65 TTTTGGGATCGACACTTGTTATAAATGTATCGACAC
456641 ATAAGTTTAC
Statistics
Matches: 765, Mismatches: 75, Indels: 70
0.84 0.08 0.08
Matches are distributed among these distances:
178 99 0.13
179 2 0.00
180 1 0.00
182 2 0.00
183 1 0.00
185 6 0.01
186 10 0.01
187 20 0.03
188 7 0.01
189 6 0.01
190 20 0.03
191 11 0.01
192 6 0.01
194 1 0.00
195 2 0.00
197 1 0.00
198 4 0.01
199 565 0.74
200 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (198 bp):
CGGTATATTTAGACCGGTTATATTACTAATTTACCTATTACATTATAATTATGGTTTTCGATGTT
TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATT
CTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTCTCAA
AAA
Found at i:456353 original size:377 final size:375
Alignment explanation
Indices: 455861--456621 Score: 1351
Period size: 377 Copynumber: 2.0 Consensus size: 375
455851 CAAATGTATT
455861 GACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCGAT
1 GACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCGAT
*
455926 TTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACTGGTATATTTAGACCGGTTATATTTC
66 TTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTTC
*
455991 TAATTTATCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
131 TAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
456056 TATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT
196 TATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT
456121 CGATTTGTGTCGATACTTTTTGTACACCGATTTTCTCAAAAATCGGTATATTTAGACCGGTTATA
261 CGATTTGTGTCGATACTTTTTGTACACCG-TTTTCTCAAAAA-CGGTATATTTAGACCGGTTATA
*
456186 TTGCTAATTTACATATTACATTATAATTATAGTTTTCGATGTTTTTTGGATC
324 TTGCTAATTTACCTATTACATTATAATTATAGTTTTCGATGTTTTTTGGATC
*
456238 GACACTTTTTAGTGCACTTGGTTTTGAAATATATTCTGGACAAAAAGTATCGACACTTGTTCGAT
1 GACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCGAT
* *
456303 TTGTGTCGATACTTTTTGTACACTTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTATATTTC
66 TTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTTC
* *
456368 TAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGATACTAGTTATAAATG
131 TAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
*
456433 TATCAACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT
196 TATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT
* * * *
456498 TGATTTGTGTCGATACTTTTTTTACACCTGTTTTCTCAAAAACCAGTATATTTAGATCGGTTATA
261 CGATTTGTGTCGATACTTTTTGTACACC-GTTTTCTCAAAAA-CGGTATATTTAGACCGGTTATA
* *
456563 TTGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATC
324 TTGCTAATTTACCTATTACATTATAATTATAGTTTTCGATGTTTTTTGGATC
456615 GACACTT
1 GACACTT
456622 ATTTTAAATG
Statistics
Matches: 367, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
377 366 1.00
378 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (375 bp):
GACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCGAT
TTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTTC
TAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
TATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTT
CGATTTGTGTCGATACTTTTTGTACACCGTTTTCTCAAAAACGGTATATTTAGACCGGTTATATT
GCTAATTTACCTATTACATTATAATTATAGTTTTCGATGTTTTTTGGATC
Found at i:456361 original size:178 final size:178
Alignment explanation
Indices: 456057--456417 Score: 625
Period size: 178 Copynumber: 2.0 Consensus size: 178
456047 TTATAAATGT
*
456057 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTC
1 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTC
*
456122 GATTTGTGTCGATACTTTTTGTACACCGATTTTCTCAAAAATCGGTATATTTAGACCGGTTATAT
66 GATTTGTGTCGATACTTTTTGTACACCGATTTTCTCAAAAACCGGTATATTTAGACCGGTTATAT
*
456187 TGCTAATTTACATATTACATTATAATTATAGTTTTCGATGTTTTTTGG
131 TGCTAATTTACATATTACATTATAATTATAGTTTTCGATGTTTTTGGG
*
456235 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATATATTCTGGACAAAAAGTATCGACACTTGTTC
1 ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTC
* *
456300 GATTTGTGTCGATACTTTTTGTACACTTG-TTTTCTCAAAAACCGGTATATTTAGGCCGGTTATA
66 GATTTGTGTCGATACTTTTTGTACAC-CGATTTTCTCAAAAACCGGTATATTTAGACCGGTTATA
* * *
456364 TTTCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGG
130 TTGCTAATTTACATATTACATTATAATTATAGTTTTCGATGTTTTTGGG
456413 ATCGA
1 ATCGA
456418 TACTAGTTAT
Statistics
Matches: 173, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
178 172 0.99
179 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (178 bp):
ATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTC
GATTTGTGTCGATACTTTTTGTACACCGATTTTCTCAAAAACCGGTATATTTAGACCGGTTATAT
TGCTAATTTACATATTACATTATAATTATAGTTTTCGATGTTTTTGGG
Found at i:456964 original size:18 final size:19
Alignment explanation
Indices: 456924--456965 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
456914 TGTGTATAAG
*
456924 ATTATAAATCGTATACAAA
1 ATTAAAAATCGTATACAAA
*
456943 ATTAAAAATCTTATAC-AA
1 ATTAAAAATCGTATACAAA
456961 ATTAA
1 ATTAA
456966 CCATGCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATTAAAAATCGTATACAAA
Found at i:458471 original size:21 final size:18
Alignment explanation
Indices: 458433--458471 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
458423 TTCTCCTCAT
458433 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
458451 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTTTCTTC
458469 TTC
1 TTC
458472 AATTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:459196 original size:22 final size:21
Alignment explanation
Indices: 459168--459224 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
459158 AACATGCATT
*
459168 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
459190 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
*
459214 TATAAAAAAAC
1 TATAATAAAAC
459225 AAAAACATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 9 0.30
24 18 0.60
25 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:460207 original size:18 final size:18
Alignment explanation
Indices: 460184--460222 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
460174 TACTGTCAAC
460184 ATTTAAAATTTGTAAT-CA
1 ATTTAAAATTT-TAATCCA
*
460202 ATTTAAAGTTTTAATCCA
1 ATTTAAAATTTTAATCCA
460220 ATT
1 ATT
460223 ACCATTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTTAAAATTTTAATCCA
Found at i:460508 original size:18 final size:19
Alignment explanation
Indices: 460476--460511 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
460466 AACCTAAAAC
460476 ATCATTTTATACCTATAAT
1 ATCATTTTATACCTATAAT
460495 ATCATTTT-TACCTATAA
1 ATCATTTTATACCTATAA
460512 ATATTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (19 bp):
ATCATTTTATACCTATAAT
Found at i:460514 original size:19 final size:20
Alignment explanation
Indices: 460467--460515 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
460457 CATTTATACA
*
460467 ACCTA-AAACATCATTTTAT
1 ACCTATAAATATCATTTTAT
460486 ACCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTAT
460504 ACCTATAAATAT
1 ACCTATAAATAT
460516 TAACTAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (20 bp):
ACCTATAAATATCATTTTAT
Found at i:461159 original size:181 final size:180
Alignment explanation
Indices: 460898--462245 Score: 1484
Period size: 182 Copynumber: 7.5 Consensus size: 180
460888 TACGCGTACT
* * * * *
460898 TATTAAAGTATCGGCACTTTCAACATATCCGATATCTATTTACCGGTTTTGTCA-TTTTGAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACT-TTT-CCGGTTTTGTCATTTTTGAGACA
* * * *
460962 GGTTTTATCATATTTTTACATGTTATATTGTTCTAGATCAATACATTTTCATAAAGTGTCGACAC
64 TGTTTTATCATATTTTTACCTGTTATATTGTT-TGGATCGATACATTTTCATAAAGTGTCGACAC
461027 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
128 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* *
461080 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCGGTTTTATCATTTTTGAGACATG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTCCGGTTTTGTCATTTTTGAGACATG
* * ** *
461145 TTTTATTATATTTTTACATGTTATATTGGTAAGGATCGATACATTTTAATAAAGTGTCGACACTT
66 TTTTATCATATTTTTACCTGTTATATT-GTTTGGATCGATACATTTTCATAAAGTGTCGACACTT
* *
461210 TTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTATCGATACTAA
130 TTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
*
461261 TATTAAATTATCGACACTTTCAATATATCCGGTAACATTTTCCGGTTTTGTCATTTTTGAGACCA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTCCGGTTTTGTCATTTTTGAGA-CA
*
461326 -GTTTTATCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTCATAAAGTGTCGACAC
64 TGTTTTATCATATTTTTACCTGTTATATTGTT-TGGATCGATACATTTTCATAAAGTGTCGACAC
* * * *
461390 TTTTT-A--G-TTTAA----TT-TC--ATAAAGTGTC-GATACT-T--ATA-TTA
128 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAA-T-TCAGAAAGTGTCGATACTTA
* * * * * * * *
461429 AATTATCGACACTT-TCAACA-TATC--CGATAT--TGT---TTTACTGGTTTTGTCAATTTTGG
1 TATTA---A-A-TTATCGACACTTTCAAC-ATATCCGGTAACTTTTCCGGTTTTGTCATTTTTGA
** * *
461485 GACATGTTTTATCATATTTTTACCTGTTATATTGTTGTGGATCGAT--ATTTTTTTAAAGTATTG
60 GACATGTTTTATCATATTTTTACCTGTTATATTGTT-TGGATCGATACATTTTCATAAAGTGTCG
* * * * *
461548 ACACTTTATAGGTGCTATAACTTCTTCTATTTTAAATTCAGAAAGTTTCGATACTTA
124 ACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * * * *
461605 TATTAAATTATTGATACTTTCAATATATCCGGTAGCGTTTTACTGGTTTTGTCAATTTTGAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTT-CCGGTTTTGTCATTTTTGAGACA
* *
461670 TGTTTTATCATATTTTCACCTGTTATATTATTATGGATCGATACATTTTCATAAAGTGTCGACAC
64 TGTTTTATCATATTTTTACCTGTTATATTGTT-TGGATCGATACATTTTCATAAAGTGTCGACAC
* * *
461735 TTTTTAAGCGCAATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATATTTA
128 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * *
461788 TATTAAATTATCGACACTTTTAACATATCCGATAACTTTTTCCGGTTTTGTCATTTTTTAGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTCCGGTTTTGTCATTTTTGAGACAT
**
461853 GTTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACT
65 GTTTTATCATATTTTTACCTGTTATATT-GTTTGGATCGATACATTTTCATAAAGTGTCGACACT
* *
461918 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTAA
129 TTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* *
461970 TATTAAATTATCGACACTTTCAATATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTTAGACCA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTCCGGTTTTGTCATTTTTGAGA-CA
* * ** * *
462035 -GTTTTATCATATTTTTACATGTTATATTGTTGTGGATCGATATATTTTTTTAACGTATCGACAC
64 TGTTTTATCATATTTTTACCTGTTATATTGTT-TGGATCGATACATTTTCATAAAGTGTCGACAC
* * * *
462099 TTTATAGGTGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
128 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * *
462152 TATTAAATTATCGACAC--TCGACACATATCCGGTAGCGTTTTACCGGTTTTTTCA-TTTTGGGA
1 TATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC-TTTT-CCGGTTTTGTCATTTTTGAGA
** * * *
462214 CCGGTTTTGTCATATTTGTACCTGTAATATTG
62 CATGTTTTATCATATTTTTACCTGTTATATTG
462246 CTATGGAGCG
Statistics
Matches: 993, Mismatches: 123, Indels: 100
0.82 0.10 0.08
Matches are distributed among these distances:
162 21 0.02
163 2 0.00
164 60 0.06
165 1 0.00
166 4 0.00
168 8 0.01
169 3 0.00
170 6 0.01
171 14 0.01
172 20 0.02
173 15 0.02
174 6 0.01
175 3 0.00
176 9 0.01
178 4 0.00
179 1 0.00
180 15 0.02
181 219 0.22
182 471 0.47
183 111 0.11
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (180 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTCCGGTTTTGTCATTTTTGAGACATG
TTTTATCATATTTTTACCTGTTATATTGTTTGGATCGATACATTTTCATAAAGTGTCGACACTTT
TTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:461528 original size:164 final size:163
Alignment explanation
Indices: 461234--461531 Score: 445
Period size: 163 Copynumber: 1.8 Consensus size: 163
461224 CTTCTTCTCT
* *
461234 TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAACAT
1 TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAACATATCCGATAACAT
*
461299 TTTCCGGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTATTATGGATC
66 TTTCCGGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTATTATGGATC
461364 GATACATTTTCATAAAGTGTCGACACTTTTTAG
131 GATACATTTTCATAAAGTGTCGACACTTTTTAG
* * * * ***
461397 TTTAATTTCATAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGATATTGT
1 TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAACATATCCGATAACAT
* * * *
461462 TTTACTGGTTTTGTCAATTTTGGGA-CATGTTTTATCATATTTTTACCTGTTATATTGTTGTGGA
66 TTT-CCGGTTTTGTCAATTTTGAGACCA-GTTTTATCATATTTTTACCTGTTATATTATTATGGA
461526 TCGATA
129 TCGATA
461532 TTTTTTTAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
163 61 0.51
164 58 0.49
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (163 bp):
TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAACATATCCGATAACAT
TTTCCGGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTATTATGGATC
GATACATTTTCATAAAGTGTCGACACTTTTTAG
Found at i:462218 original size:20 final size:21
Alignment explanation
Indices: 462193--462231 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
462183 GTAGCGTTTT
*
462193 ACCGGTTTTTTCAT-TTTGGG
1 ACCGGTTTTGTCATATTTGGG
462213 ACCGGTTTTGTCATATTTG
1 ACCGGTTTTGTCATATTTG
462232 TACCTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.49
Consensus pattern (21 bp):
ACCGGTTTTGTCATATTTGGG
Found at i:463097 original size:38 final size:37
Alignment explanation
Indices: 463035--463118 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 37
463025 TTTTGTTCGG
*
463035 GTCGGGTAGGGTTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTTGGGTTTTTTAAGTGTGATATTCGGGTCGA
*
463072 GTCGGGTTGGGTTTTTTTAAGTGTGATATTCGGGTCGG
1 GTCGGGTTGGG-TTTTTTAAGTGTGATATTCGGGTCGA
463110 GTTCGGGTT
1 G-TCGGGTT
463119 TAGGGTGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 10 0.23
38 26 0.60
39 7 0.16
ACGTcount: A:0.12, C:0.08, G:0.39, T:0.40
Consensus pattern (37 bp):
GTCGGGTTGGGTTTTTTAAGTGTGATATTCGGGTCGA
Found at i:463334 original size:37 final size:37
Alignment explanation
Indices: 463284--463371 Score: 149
Period size: 38 Copynumber: 2.4 Consensus size: 37
463274 TTTTGTTCGG
463284 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
*
463321 GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTC-GGGTTTTTTAAGTGTGATATTCGGGTCGA
*
463359 ATCGGGTCGGGTT
1 GTCGGGTCGGGTT
463372 CGGGTTTAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 12 0.26
38 35 0.74
ACGTcount: A:0.14, C:0.11, G:0.38, T:0.38
Consensus pattern (37 bp):
GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
Found at i:463527 original size:259 final size:250
Alignment explanation
Indices: 462811--463573 Score: 984
Period size: 249 Copynumber: 3.0 Consensus size: 250
462801 ACTTTATTTT
* * *
462811 GGTCGGGTCGGATCGGGTTTTTTTAAGTGTGATA-T----TCGGGTTCGGGTTTAGGGTGAAAAA
1 GGTCGAGTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA
* * * *
462871 CACCGGACCGACTCGAAAATATATATAATTCAGGTCGGGTCGCATTAAGTCACTATTTTTATTAA
66 AACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTATTTTTATTAA
* *
462936 ATAAAAATAATTTTTTATTATTTCGGGTTCGGGTTGGGTTGGATTTCTAATTCATATATTCGGGT
131 ATAAAAAT-ATTTTTTATTATTTCGGG-TCGGGTCGGGTCGGATTTCTAATTCATATA------T
*
463001 CGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTAGGGTTTTTTAAGTGTGATATTCG
188 C--GTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCG
**
463066 GGTCGAGTCGGGTTGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA
1 GGTCGAGTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA
* *
463131 AACCGGACCGACCCAAAAATATATATAATTCGGGT----T-GGATTAAGTCACTGTTTTTATTAA
66 AACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTATTTTTATTAA
463191 ATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTC
131 ATAAAAATA-TTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATA-TC--GTC
*
463256 GGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCG
192 GGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCG
463315 GGTCGAGTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGAATCGGGTCGGGTTCGGGTTTA
1 GGTCGAGTCGGGTCAGGTTTTTTTAAGTGTGATA------T----TCGGGTCGGGTTCGGGTTTA
** * *
463380 GGGTGAAAAAAACCTAACCGACCCGAATATATATATAATTCGGGTCGGGTCGGATTAAGTCACTT
56 GGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTA
* * *
463445 TTTTTATTAAATAAAAATATTTTTTACCTATTTTGGGTCTGGTCGGGTCGGATTTCTAATTCATA
121 TTTTTATTAAATAAAAATATTTTTTA-TTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATA
463510 TA-C-TCGGGTCGGATGAAACTTTATTTTG-T----TCGGGTCGGGTTTTTTAAGTGTGATATTC
185 TATCGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTC
463568 G
250 G
463569 GGTCG
1 GGTCG
463574 GGTTTTTTTA
Statistics
Matches: 461, Mismatches: 25, Indels: 45
0.87 0.05 0.08
Matches are distributed among these distances:
249 96 0.21
254 64 0.14
255 79 0.17
256 2 0.00
258 1 0.00
259 85 0.18
260 56 0.12
262 1 0.00
263 8 0.02
264 69 0.15
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (250 bp):
GGTCGAGTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA
AACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTATTTTTATTAA
ATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATCGTCGGGT
CGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCG
Found at i:463576 original size:27 final size:28
Alignment explanation
Indices: 463538--463599 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
463528 CTTTATTTTG
463538 TTCGGGTCGGG-TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTTAAGTGTGATA
463565 TTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTTAAGTGTGATA
*
463593 TTGGGGT
1 TTCGGGT
463600 TAGGTCGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 11 0.33
28 22 0.67
ACGTcount: A:0.13, C:0.06, G:0.35, T:0.45
Consensus pattern (28 bp):
TTCGGGTCGGGTTTTTTTAAGTGTGATA
Done.